Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c19b' (ED25519) to the list of known hosts. You can reproduce this build on your computer by running: sudo dnf install copr-rpmbuild /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/8103944-fedora-39-x86_64 --chroot fedora-39-x86_64 Version: 0.73 PID: 16751 Logging PID: 16752 Task: {'allow_user_ssh': False, 'appstream': False, 'background': False, 'bootstrap': 'off', 'build_id': 8103944, 'buildroot_pkgs': [], 'chroot': 'fedora-39-x86_64', 'enable_net': False, 'fedora_review': False, 'git_hash': 'e9af3d68b7ad7f3f08bee2292ff230a55d490ef6', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/iucar/cran/R-CRAN-seqminer', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'R-CRAN-seqminer', 'package_version': '9.7-1.copr8103944', 'project_dirname': 'cran', 'project_name': 'cran', 'project_owner': 'iucar', 'repo_priority': None, 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/iucar/cran/fedora-39-x86_64/', 'id': 'copr_base', 'name': 'Copr repository', 'priority': None}], 'sandbox': 'iucar/cran--iucar', 'source_json': {}, 'source_type': None, 'ssh_public_keys': None, 'submitter': 'iucar', 'tags': [], 'task_id': '8103944-fedora-39-x86_64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/iucar/cran/R-CRAN-seqminer /var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/iucar/cran/R-CRAN-seqminer', '/var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer'... Running: git checkout e9af3d68b7ad7f3f08bee2292ff230a55d490ef6 -- cmd: ['git', 'checkout', 'e9af3d68b7ad7f3f08bee2292ff230a55d490ef6', '--'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer rc: 0 stdout: stderr: Note: switching to 'e9af3d68b7ad7f3f08bee2292ff230a55d490ef6'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at e9af3d6 automatic import of R-CRAN-seqminer Running: copr-distgit-client sources /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated cmd: ['copr-distgit-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer rc: 0 stdout: stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD INFO: Reading stdout from command: git rev-parse HEAD INFO: Reading sources specification file: sources INFO: Downloading seqminer_9.7.tar.gz INFO: Reading stdout from command: curl --help all INFO: Calling: curl -H Pragma: -o seqminer_9.7.tar.gz --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/iucar/cran/R-CRAN-seqminer/seqminer_9.7.tar.gz/md5/084c1f805f31e9672fcc393362577e5c/seqminer_9.7.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 4540k 100 4540k 0 0 33.5M 0 --:--:-- --:--:-- --:--:-- 33.8M INFO: Reading stdout from command: md5sum seqminer_9.7.tar.gz Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer/R-CRAN-seqminer.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1727920733.819871 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 5.6 starting (python version = 3.12.1, NVR = mock-5.6-1.fc39), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer/R-CRAN-seqminer.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1727920733.819871 -r /var/lib/copr-rpmbuild/results/configs/child.cfg Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer/R-CRAN-seqminer.spec) Config(fedora-39-x86_64) Start: clean chroot Finish: clean chroot Mock Version: 5.6 INFO: Mock Version: 5.6 Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-39-x86_64-1727920733.819871/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Package manager dnf detected and used (fallback) INFO: Buildroot is handled by package management from host and used with --installroot: rpm-4.19.1.1-1.fc39.x86_64 rpm-sequoia-1.6.0-1.fc39.x86_64 python3-dnf-4.21.1-1.fc39.noarch python3-dnf-plugins-core-4.9.0-1.fc39.noarch yum-4.21.1-1.fc39.noarch dnf5-5.1.17-2.fc39.x86_64 dnf5-plugins-5.1.17-2.fc39.x86_64 Start: installing minimal buildroot with dnf No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 31 kB/s | 1.5 kB 00:00 Copr repository 17 MB/s | 28 MB 00:01 fedora 879 kB/s | 31 kB 00:00 updates 1.1 MB/s | 29 kB 00:00 Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing group/module packages: bash x86_64 5.2.26-1.fc39 updates 1.8 M bzip2 x86_64 1.0.8-16.fc39 fedora 52 k coreutils x86_64 9.3-6.fc39 updates 1.1 M cpio x86_64 2.14-4.fc39 fedora 279 k diffutils x86_64 3.10-3.fc39 fedora 398 k fedora-release-common noarch 39-36 updates 19 k findutils x86_64 1:4.9.0-6.fc39 updates 490 k gawk x86_64 5.2.2-2.fc39 fedora 1.1 M glibc-minimal-langpack x86_64 2.38-18.fc39 updates 73 k grep x86_64 3.11-3.fc39 fedora 298 k gzip x86_64 1.12-6.fc39 fedora 166 k info x86_64 7.0.3-3.fc39 fedora 182 k patch x86_64 2.7.6-22.fc39 fedora 125 k redhat-rpm-config noarch 266-1.fc39 updates 78 k rpm-build x86_64 4.19.1.1-1.fc39 updates 78 k sed x86_64 4.8-14.fc39 fedora 306 k shadow-utils x86_64 2:4.14.0-2.fc39 updates 1.3 M tar x86_64 2:1.35-2.fc39 fedora 864 k unzip x86_64 6.0-62.fc39 fedora 184 k util-linux x86_64 2.39.4-1.fc39 updates 1.2 M which x86_64 2.21-40.fc39 fedora 42 k xz x86_64 5.4.4-1.fc39 fedora 556 k Installing dependencies: alternatives x86_64 1.26-1.fc39 updates 39 k ansible-srpm-macros noarch 1-12.fc39 updates 21 k audit-libs x86_64 3.1.5-1.fc39 updates 123 k authselect x86_64 1.4.3-1.fc39 fedora 149 k authselect-libs x86_64 1.4.3-1.fc39 fedora 249 k basesystem noarch 11-18.fc39 fedora 7.2 k binutils x86_64 2.40-14.fc39 updates 5.6 M binutils-gold x86_64 2.40-14.fc39 updates 795 k bzip2-libs x86_64 1.0.8-16.fc39 fedora 41 k ca-certificates noarch 2023.2.60_v7.0.306-2.fc39 fedora 837 k coreutils-common x86_64 9.3-6.fc39 updates 2.1 M cracklib x86_64 2.9.11-2.fc39 fedora 94 k crypto-policies noarch 20231204-1.git1e3a2e4.fc39 updates 100 k curl x86_64 8.2.1-5.fc39 updates 344 k cyrus-sasl-lib x86_64 2.1.28-11.fc39 fedora 793 k debugedit x86_64 5.0-12.fc39 updates 79 k dwz x86_64 0.15-3.fc39 fedora 134 k ed x86_64 1.19-4.fc39 fedora 79 k efi-srpm-macros noarch 5-9.fc39 fedora 22 k elfutils x86_64 0.191-2.fc39 updates 559 k elfutils-debuginfod-client x86_64 0.191-2.fc39 updates 38 k elfutils-default-yama-scope noarch 0.191-2.fc39 updates 13 k elfutils-libelf x86_64 0.191-2.fc39 updates 209 k elfutils-libs x86_64 0.191-2.fc39 updates 263 k fedora-gpg-keys noarch 39-2 updates 130 k fedora-release noarch 39-36 updates 8.6 k fedora-release-identity-basic noarch 39-36 updates 9.4 k fedora-repos noarch 39-2 updates 9.3 k file x86_64 5.44-5.fc39 fedora 49 k file-libs x86_64 5.44-5.fc39 fedora 729 k filesystem x86_64 3.18-6.fc39 fedora 1.1 M fonts-srpm-macros noarch 1:2.0.5-12.fc39 fedora 26 k forge-srpm-macros noarch 0.3.1-1.fc39 updates 19 k fpc-srpm-macros noarch 1.3-8.fc39 fedora 7.4 k gdb-minimal x86_64 15.1-1.fc39 updates 4.3 M gdbm-libs x86_64 1:1.23-4.fc39 fedora 56 k ghc-srpm-macros noarch 1.6.1-2.fc39 fedora 7.8 k glibc x86_64 2.38-18.fc39 updates 2.2 M glibc-common x86_64 2.38-18.fc39 updates 353 k glibc-gconv-extra x86_64 2.38-18.fc39 updates 1.6 M gmp x86_64 1:6.2.1-5.fc39 fedora 313 k gnat-srpm-macros noarch 6-3.fc39 fedora 8.8 k go-srpm-macros noarch 3.5.0-1.fc39 updates 28 k jansson x86_64 2.13.1-7.fc39 fedora 44 k kernel-srpm-macros noarch 1.0-20.fc39 fedora 10 k keyutils-libs x86_64 1.6.3-1.fc39 updates 31 k krb5-libs x86_64 1.21.3-1.fc39 updates 764 k libacl x86_64 2.3.1-9.fc39 updates 23 k libarchive x86_64 3.7.1-2.fc39 updates 407 k libattr x86_64 2.5.1-8.fc39 fedora 18 k libblkid x86_64 2.39.4-1.fc39 updates 116 k libbrotli x86_64 1.1.0-1.fc39 fedora 336 k libcap x86_64 2.48-9.fc39 updates 68 k libcap-ng x86_64 0.8.3-8.fc39 fedora 32 k libcom_err x86_64 1.47.0-2.fc39 fedora 26 k libcurl x86_64 8.2.1-5.fc39 updates 322 k libdb x86_64 5.3.28-56.fc39 fedora 760 k libeconf x86_64 0.5.2-2.fc39 updates 30 k libevent x86_64 2.1.12-9.fc39 fedora 258 k libfdisk x86_64 2.39.4-1.fc39 updates 161 k libffi x86_64 3.4.4-4.fc39 fedora 40 k libgcc x86_64 13.3.1-3.fc39 updates 120 k libgomp x86_64 13.3.1-3.fc39 updates 329 k libidn2 x86_64 2.3.7-1.fc39 updates 119 k libmount x86_64 2.39.4-1.fc39 updates 154 k libnghttp2 x86_64 1.55.1-5.fc39 updates 75 k libnsl2 x86_64 2.0.0-6.fc39 fedora 30 k libpkgconf x86_64 1.9.5-2.fc39 fedora 38 k libpsl x86_64 0.21.2-4.fc39 fedora 63 k libpwquality x86_64 1.4.5-6.fc39 fedora 120 k libselinux x86_64 3.5-5.fc39 fedora 87 k libsemanage x86_64 3.5-4.fc39 fedora 120 k libsepol x86_64 3.5-2.fc39 fedora 324 k libsigsegv x86_64 2.14-5.fc39 fedora 27 k libsmartcols x86_64 2.39.4-1.fc39 updates 67 k libssh x86_64 0.10.6-2.fc39 updates 212 k libssh-config noarch 0.10.6-2.fc39 updates 9.0 k libstdc++ x86_64 13.3.1-3.fc39 updates 870 k libtasn1 x86_64 4.19.0-3.fc39 fedora 74 k libtirpc x86_64 1.3.5-0.fc39 updates 94 k libtool-ltdl x86_64 2.4.7-7.fc39 fedora 36 k libunistring x86_64 1.1-5.fc39 fedora 543 k libutempter x86_64 1.2.1-10.fc39 fedora 26 k libuuid x86_64 2.39.4-1.fc39 updates 28 k libverto x86_64 0.3.2-6.fc39 fedora 20 k libxcrypt x86_64 4.4.36-2.fc39 fedora 119 k libxml2 x86_64 2.10.4-3.fc39 fedora 701 k libzstd x86_64 1.5.6-1.fc39 updates 312 k lua-libs x86_64 5.4.6-3.fc39 fedora 133 k lua-srpm-macros noarch 1-13.fc39 updates 8.7 k lz4-libs x86_64 1.9.4-4.fc39 fedora 67 k mpfr x86_64 4.2.0-3.fc39 fedora 344 k ncurses-base noarch 6.4-7.20230520.fc39.1 updates 88 k ncurses-libs x86_64 6.4-7.20230520.fc39.1 updates 336 k ocaml-srpm-macros noarch 8-2.fc39 fedora 14 k openblas-srpm-macros noarch 2-14.fc39 fedora 7.5 k openldap x86_64 2.6.7-1.fc39 updates 254 k openssl-libs x86_64 1:3.1.4-4.fc39 updates 2.2 M p11-kit x86_64 0.25.5-1.fc39 updates 515 k p11-kit-trust x86_64 0.25.5-1.fc39 updates 138 k package-notes-srpm-macros noarch 0.5-9.fc39 fedora 11 k pam x86_64 1.5.3-3.fc39 updates 542 k pam-libs x86_64 1.5.3-3.fc39 updates 56 k pcre2 x86_64 10.42-1.fc39.2 fedora 233 k pcre2-syntax noarch 10.42-1.fc39.2 fedora 143 k perl-srpm-macros noarch 1-51.fc39 fedora 8.0 k pkgconf x86_64 1.9.5-2.fc39 fedora 42 k pkgconf-m4 noarch 1.9.5-2.fc39 fedora 14 k pkgconf-pkg-config x86_64 1.9.5-2.fc39 fedora 9.6 k popt x86_64 1.19-3.fc39 fedora 66 k publicsuffix-list-dafsa noarch 20240107-1.fc39 updates 58 k pyproject-srpm-macros noarch 1.13.0-1.fc39 updates 13 k python-srpm-macros noarch 3.12-8.fc39 updates 23 k qt5-srpm-macros noarch 5.15.14-2.fc39 updates 8.9 k qt6-srpm-macros noarch 6.6.2-1.fc39 updates 8.9 k readline x86_64 8.2-6.fc39 updates 212 k rpm x86_64 4.19.1.1-1.fc39 updates 538 k rpm-build-libs x86_64 4.19.1.1-1.fc39 updates 95 k rpm-libs x86_64 4.19.1.1-1.fc39 updates 312 k rpm-sequoia x86_64 1.7.0-1.fc39 updates 904 k rpmautospec-rpm-macros noarch 0.7.2-1.fc39 updates 10 k rust-srpm-macros noarch 26.3-1.fc39 updates 13 k setup noarch 2.14.4-1.fc39 fedora 154 k sqlite-libs x86_64 3.42.0-7.fc39 fedora 678 k systemd-libs x86_64 254.18-1.fc39 updates 682 k util-linux-core x86_64 2.39.4-1.fc39 updates 507 k xxhash-libs x86_64 0.8.2-1.fc39 fedora 37 k xz-libs x86_64 5.4.4-1.fc39 fedora 108 k zip x86_64 3.0-39.fc39 fedora 266 k zlib x86_64 1.2.13-4.fc39 fedora 94 k zstd x86_64 1.5.6-1.fc39 updates 479 k Installing Groups: Buildsystem building group Transaction Summary ================================================================================ Install 153 Packages Total size: 52 M Installed size: 179 M Downloading Packages: [SKIPPED] authselect-1.4.3-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] authselect-libs-1.4.3-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] basesystem-11-18.fc39.noarch.rpm: Already downloaded [SKIPPED] bzip2-1.0.8-16.fc39.x86_64.rpm: Already downloaded [SKIPPED] bzip2-libs-1.0.8-16.fc39.x86_64.rpm: Already downloaded [SKIPPED] ca-certificates-2023.2.60_v7.0.306-2.fc39.noarch.rpm: Already downloaded [SKIPPED] cpio-2.14-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] cracklib-2.9.11-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] cyrus-sasl-lib-2.1.28-11.fc39.x86_64.rpm: Already downloaded [SKIPPED] diffutils-3.10-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] dwz-0.15-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] ed-1.19-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] efi-srpm-macros-5-9.fc39.noarch.rpm: Already downloaded [SKIPPED] file-5.44-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] file-libs-5.44-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] filesystem-3.18-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] fonts-srpm-macros-2.0.5-12.fc39.noarch.rpm: Already downloaded [SKIPPED] fpc-srpm-macros-1.3-8.fc39.noarch.rpm: Already downloaded [SKIPPED] gawk-5.2.2-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] gdbm-libs-1.23-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] ghc-srpm-macros-1.6.1-2.fc39.noarch.rpm: Already downloaded [SKIPPED] gmp-6.2.1-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] gnat-srpm-macros-6-3.fc39.noarch.rpm: Already downloaded [SKIPPED] grep-3.11-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] gzip-1.12-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] info-7.0.3-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] jansson-2.13.1-7.fc39.x86_64.rpm: Already downloaded [SKIPPED] kernel-srpm-macros-1.0-20.fc39.noarch.rpm: Already downloaded [SKIPPED] libattr-2.5.1-8.fc39.x86_64.rpm: Already downloaded [SKIPPED] libbrotli-1.1.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libcap-ng-0.8.3-8.fc39.x86_64.rpm: Already downloaded [SKIPPED] libcom_err-1.47.0-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libdb-5.3.28-56.fc39.x86_64.rpm: Already downloaded [SKIPPED] libevent-2.1.12-9.fc39.x86_64.rpm: Already downloaded [SKIPPED] libffi-3.4.4-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] libnsl2-2.0.0-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] libpkgconf-1.9.5-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libpsl-0.21.2-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] libpwquality-1.4.5-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] libselinux-3.5-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] libsemanage-3.5-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] libsepol-3.5-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libsigsegv-2.14-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] libtasn1-4.19.0-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libtool-ltdl-2.4.7-7.fc39.x86_64.rpm: Already downloaded [SKIPPED] libunistring-1.1-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] libutempter-1.2.1-10.fc39.x86_64.rpm: Already downloaded [SKIPPED] libverto-0.3.2-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] libxcrypt-4.4.36-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libxml2-2.10.4-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] lua-libs-5.4.6-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] lz4-libs-1.9.4-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] mpfr-4.2.0-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] ocaml-srpm-macros-8-2.fc39.noarch.rpm: Already downloaded [SKIPPED] openblas-srpm-macros-2-14.fc39.noarch.rpm: Already downloaded [SKIPPED] package-notes-srpm-macros-0.5-9.fc39.noarch.rpm: Already downloaded [SKIPPED] patch-2.7.6-22.fc39.x86_64.rpm: Already downloaded [SKIPPED] pcre2-10.42-1.fc39.2.x86_64.rpm: Already downloaded [SKIPPED] pcre2-syntax-10.42-1.fc39.2.noarch.rpm: Already downloaded [SKIPPED] perl-srpm-macros-1-51.fc39.noarch.rpm: Already downloaded [SKIPPED] pkgconf-1.9.5-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] pkgconf-m4-1.9.5-2.fc39.noarch.rpm: Already downloaded [SKIPPED] pkgconf-pkg-config-1.9.5-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] popt-1.19-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] sed-4.8-14.fc39.x86_64.rpm: Already downloaded [SKIPPED] setup-2.14.4-1.fc39.noarch.rpm: Already downloaded [SKIPPED] sqlite-libs-3.42.0-7.fc39.x86_64.rpm: Already downloaded [SKIPPED] tar-1.35-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] unzip-6.0-62.fc39.x86_64.rpm: Already downloaded [SKIPPED] which-2.21-40.fc39.x86_64.rpm: Already downloaded [SKIPPED] xxhash-libs-0.8.2-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] xz-5.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] xz-libs-5.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] zip-3.0-39.fc39.x86_64.rpm: Already downloaded [SKIPPED] zlib-1.2.13-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] alternatives-1.26-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] ansible-srpm-macros-1-12.fc39.noarch.rpm: Already downloaded [SKIPPED] audit-libs-3.1.5-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] bash-5.2.26-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] binutils-2.40-14.fc39.x86_64.rpm: Already downloaded [SKIPPED] binutils-gold-2.40-14.fc39.x86_64.rpm: Already downloaded [SKIPPED] coreutils-9.3-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] coreutils-common-9.3-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] crypto-policies-20231204-1.git1e3a2e4.fc39.noarch.rpm: Already downloaded [SKIPPED] curl-8.2.1-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] debugedit-5.0-12.fc39.x86_64.rpm: Already downloaded [SKIPPED] elfutils-0.191-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] elfutils-debuginfod-client-0.191-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] elfutils-default-yama-scope-0.191-2.fc39.noarch.rpm: Already downloaded [SKIPPED] elfutils-libelf-0.191-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] elfutils-libs-0.191-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] fedora-gpg-keys-39-2.noarch.rpm: Already downloaded [SKIPPED] fedora-release-39-36.noarch.rpm: Already downloaded [SKIPPED] fedora-release-common-39-36.noarch.rpm: Already downloaded [SKIPPED] fedora-release-identity-basic-39-36.noarch.rpm: Already downloaded [SKIPPED] fedora-repos-39-2.noarch.rpm: Already downloaded [SKIPPED] findutils-4.9.0-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] forge-srpm-macros-0.3.1-1.fc39.noarch.rpm: Already downloaded [SKIPPED] gdb-minimal-15.1-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] glibc-2.38-18.fc39.x86_64.rpm: Already downloaded [SKIPPED] glibc-common-2.38-18.fc39.x86_64.rpm: Already downloaded [SKIPPED] glibc-gconv-extra-2.38-18.fc39.x86_64.rpm: Already downloaded [SKIPPED] glibc-minimal-langpack-2.38-18.fc39.x86_64.rpm: Already downloaded [SKIPPED] go-srpm-macros-3.5.0-1.fc39.noarch.rpm: Already downloaded [SKIPPED] keyutils-libs-1.6.3-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] krb5-libs-1.21.3-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libacl-2.3.1-9.fc39.x86_64.rpm: Already downloaded [SKIPPED] libarchive-3.7.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libblkid-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libcap-2.48-9.fc39.x86_64.rpm: Already downloaded [SKIPPED] libcurl-8.2.1-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] libeconf-0.5.2-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libfdisk-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libgcc-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libgomp-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libidn2-2.3.7-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libmount-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libnghttp2-1.55.1-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] libsmartcols-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libssh-0.10.6-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libssh-config-0.10.6-2.fc39.noarch.rpm: Already downloaded [SKIPPED] libstdc++-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libtirpc-1.3.5-0.fc39.x86_64.rpm: Already downloaded [SKIPPED] libuuid-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libzstd-1.5.6-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] lua-srpm-macros-1-13.fc39.noarch.rpm: Already downloaded [SKIPPED] ncurses-base-6.4-7.20230520.fc39.1.noarch.rpm: Already downloaded [SKIPPED] ncurses-libs-6.4-7.20230520.fc39.1.x86_64.rpm: Already downloaded [SKIPPED] openldap-2.6.7-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] openssl-libs-3.1.4-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] p11-kit-0.25.5-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] p11-kit-trust-0.25.5-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] pam-1.5.3-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] pam-libs-1.5.3-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] publicsuffix-list-dafsa-20240107-1.fc39.noarch.rpm: Already downloaded [SKIPPED] pyproject-srpm-macros-1.13.0-1.fc39.noarch.rpm: Already downloaded [SKIPPED] python-srpm-macros-3.12-8.fc39.noarch.rpm: Already downloaded [SKIPPED] qt5-srpm-macros-5.15.14-2.fc39.noarch.rpm: Already downloaded [SKIPPED] qt6-srpm-macros-6.6.2-1.fc39.noarch.rpm: Already downloaded [SKIPPED] readline-8.2-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] redhat-rpm-config-266-1.fc39.noarch.rpm: Already downloaded [SKIPPED] rpm-4.19.1.1-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] rpm-build-4.19.1.1-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] rpm-build-libs-4.19.1.1-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] rpm-libs-4.19.1.1-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] rpm-sequoia-1.7.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] rpmautospec-rpm-macros-0.7.2-1.fc39.noarch.rpm: Already downloaded [SKIPPED] rust-srpm-macros-26.3-1.fc39.noarch.rpm: Already downloaded [SKIPPED] shadow-utils-4.14.0-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] systemd-libs-254.18-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] util-linux-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] util-linux-core-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] zstd-1.5.6-1.fc39.x86_64.rpm: Already downloaded fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x18B8E74C: Userid : "Fedora (39) " Fingerprint: E8F2 3996 F232 1864 0CB4 4CBE 75CF 5AC4 18B8 E74C From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-39-primary Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.18-6.fc39.x86_64 1/1 Preparing : 1/1 Installing : libgcc-13.3.1-3.fc39.x86_64 1/153 Running scriptlet: libgcc-13.3.1-3.fc39.x86_64 1/153 Installing : crypto-policies-20231204-1.git1e3a2e4.fc39.noarc 2/153 Running scriptlet: crypto-policies-20231204-1.git1e3a2e4.fc39.noarc 2/153 Installing : fedora-release-identity-basic-39-36.noarch 3/153 Installing : fedora-gpg-keys-39-2.noarch 4/153 Installing : fedora-repos-39-2.noarch 5/153 Installing : fedora-release-common-39-36.noarch 6/153 Installing : fedora-release-39-36.noarch 7/153 Installing : setup-2.14.4-1.fc39.noarch 8/153 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.14.4-1.fc39.noarch 8/153 Installing : filesystem-3.18-6.fc39.x86_64 9/153 Installing : basesystem-11-18.fc39.noarch 10/153 Installing : rust-srpm-macros-26.3-1.fc39.noarch 11/153 Installing : qt6-srpm-macros-6.6.2-1.fc39.noarch 12/153 Installing : qt5-srpm-macros-5.15.14-2.fc39.noarch 13/153 Installing : publicsuffix-list-dafsa-20240107-1.fc39.noarch 14/153 Installing : ncurses-base-6.4-7.20230520.fc39.1.noarch 15/153 Installing : glibc-gconv-extra-2.38-18.fc39.x86_64 16/153 Running scriptlet: glibc-gconv-extra-2.38-18.fc39.x86_64 16/153 Installing : glibc-minimal-langpack-2.38-18.fc39.x86_64 17/153 Installing : glibc-common-2.38-18.fc39.x86_64 18/153 Running scriptlet: glibc-2.38-18.fc39.x86_64 19/153 Installing : glibc-2.38-18.fc39.x86_64 19/153 Running scriptlet: glibc-2.38-18.fc39.x86_64 19/153 Installing : ncurses-libs-6.4-7.20230520.fc39.1.x86_64 20/153 Installing : bash-5.2.26-1.fc39.x86_64 21/153 Running scriptlet: bash-5.2.26-1.fc39.x86_64 21/153 Installing : zlib-1.2.13-4.fc39.x86_64 22/153 Installing : xz-libs-5.4.4-1.fc39.x86_64 23/153 Installing : bzip2-libs-1.0.8-16.fc39.x86_64 24/153 Installing : popt-1.19-3.fc39.x86_64 25/153 Installing : libstdc++-13.3.1-3.fc39.x86_64 26/153 Installing : libuuid-2.39.4-1.fc39.x86_64 27/153 Installing : libzstd-1.5.6-1.fc39.x86_64 28/153 Installing : elfutils-libelf-0.191-2.fc39.x86_64 29/153 Installing : libblkid-2.39.4-1.fc39.x86_64 30/153 Installing : readline-8.2-6.fc39.x86_64 31/153 Installing : gmp-1:6.2.1-5.fc39.x86_64 32/153 Installing : libattr-2.5.1-8.fc39.x86_64 33/153 Installing : libacl-2.3.1-9.fc39.x86_64 34/153 Installing : libxcrypt-4.4.36-2.fc39.x86_64 35/153 Installing : libcap-2.48-9.fc39.x86_64 36/153 Installing : lz4-libs-1.9.4-4.fc39.x86_64 37/153 Installing : libeconf-0.5.2-2.fc39.x86_64 38/153 Installing : systemd-libs-254.18-1.fc39.x86_64 39/153 Installing : mpfr-4.2.0-3.fc39.x86_64 40/153 Installing : dwz-0.15-3.fc39.x86_64 41/153 Installing : unzip-6.0-62.fc39.x86_64 42/153 Installing : file-libs-5.44-5.fc39.x86_64 43/153 Installing : file-5.44-5.fc39.x86_64 44/153 Installing : jansson-2.13.1-7.fc39.x86_64 45/153 Installing : libcap-ng-0.8.3-8.fc39.x86_64 46/153 Installing : audit-libs-3.1.5-1.fc39.x86_64 47/153 Installing : pam-libs-1.5.3-3.fc39.x86_64 48/153 Installing : libcom_err-1.47.0-2.fc39.x86_64 49/153 Installing : libsepol-3.5-2.fc39.x86_64 50/153 Installing : libtasn1-4.19.0-3.fc39.x86_64 51/153 Installing : libunistring-1.1-5.fc39.x86_64 52/153 Installing : libidn2-2.3.7-1.fc39.x86_64 53/153 Installing : lua-libs-5.4.6-3.fc39.x86_64 54/153 Installing : alternatives-1.26-1.fc39.x86_64 55/153 Installing : libsmartcols-2.39.4-1.fc39.x86_64 56/153 Installing : libpsl-0.21.2-4.fc39.x86_64 57/153 Installing : zip-3.0-39.fc39.x86_64 58/153 Installing : zstd-1.5.6-1.fc39.x86_64 59/153 Installing : libfdisk-2.39.4-1.fc39.x86_64 60/153 Installing : bzip2-1.0.8-16.fc39.x86_64 61/153 Installing : libxml2-2.10.4-3.fc39.x86_64 62/153 Installing : sqlite-libs-3.42.0-7.fc39.x86_64 63/153 Installing : ed-1.19-4.fc39.x86_64 64/153 Installing : elfutils-default-yama-scope-0.191-2.fc39.noarch 65/153 Running scriptlet: elfutils-default-yama-scope-0.191-2.fc39.noarch 65/153 Installing : cpio-2.14-4.fc39.x86_64 66/153 Installing : diffutils-3.10-3.fc39.x86_64 67/153 Installing : gdbm-libs-1:1.23-4.fc39.x86_64 68/153 Installing : cyrus-sasl-lib-2.1.28-11.fc39.x86_64 69/153 Installing : libbrotli-1.1.0-1.fc39.x86_64 70/153 Installing : libdb-5.3.28-56.fc39.x86_64 71/153 Installing : libffi-3.4.4-4.fc39.x86_64 72/153 Installing : p11-kit-0.25.5-1.fc39.x86_64 73/153 Installing : p11-kit-trust-0.25.5-1.fc39.x86_64 74/153 Running scriptlet: p11-kit-trust-0.25.5-1.fc39.x86_64 74/153 Installing : libpkgconf-1.9.5-2.fc39.x86_64 75/153 Installing : pkgconf-1.9.5-2.fc39.x86_64 76/153 Installing : libsigsegv-2.14-5.fc39.x86_64 77/153 Installing : gawk-5.2.2-2.fc39.x86_64 78/153 Installing : libtool-ltdl-2.4.7-7.fc39.x86_64 79/153 Installing : libverto-0.3.2-6.fc39.x86_64 80/153 Installing : xxhash-libs-0.8.2-1.fc39.x86_64 81/153 Installing : keyutils-libs-1.6.3-1.fc39.x86_64 82/153 Installing : libgomp-13.3.1-3.fc39.x86_64 83/153 Installing : libnghttp2-1.55.1-5.fc39.x86_64 84/153 Installing : libssh-config-0.10.6-2.fc39.noarch 85/153 Installing : coreutils-common-9.3-6.fc39.x86_64 86/153 Installing : ansible-srpm-macros-1-12.fc39.noarch 87/153 Installing : pkgconf-m4-1.9.5-2.fc39.noarch 88/153 Installing : pkgconf-pkg-config-1.9.5-2.fc39.x86_64 89/153 Installing : perl-srpm-macros-1-51.fc39.noarch 90/153 Installing : pcre2-syntax-10.42-1.fc39.2.noarch 91/153 Installing : pcre2-10.42-1.fc39.2.x86_64 92/153 Installing : libselinux-3.5-5.fc39.x86_64 93/153 Installing : sed-4.8-14.fc39.x86_64 94/153 Installing : grep-3.11-3.fc39.x86_64 95/153 Installing : findutils-1:4.9.0-6.fc39.x86_64 96/153 Installing : xz-5.4.4-1.fc39.x86_64 97/153 Installing : libmount-2.39.4-1.fc39.x86_64 98/153 Installing : util-linux-core-2.39.4-1.fc39.x86_64 99/153 Installing : openssl-libs-1:3.1.4-4.fc39.x86_64 100/153 Installing : coreutils-9.3-6.fc39.x86_64 101/153 Running scriptlet: ca-certificates-2023.2.60_v7.0.306-2.fc39.noarch 102/153 Installing : ca-certificates-2023.2.60_v7.0.306-2.fc39.noarch 102/153 Running scriptlet: ca-certificates-2023.2.60_v7.0.306-2.fc39.noarch 102/153 Installing : krb5-libs-1.21.3-1.fc39.x86_64 103/153 Installing : libtirpc-1.3.5-0.fc39.x86_64 104/153 Running scriptlet: authselect-libs-1.4.3-1.fc39.x86_64 105/153 Installing : authselect-libs-1.4.3-1.fc39.x86_64 105/153 Installing : gzip-1.12-6.fc39.x86_64 106/153 Installing : libarchive-3.7.1-2.fc39.x86_64 107/153 Installing : cracklib-2.9.11-2.fc39.x86_64 108/153 Installing : libpwquality-1.4.5-6.fc39.x86_64 109/153 Installing : authselect-1.4.3-1.fc39.x86_64 110/153 Installing : libnsl2-2.0.0-6.fc39.x86_64 111/153 Installing : pam-1.5.3-3.fc39.x86_64 112/153 Installing : libssh-0.10.6-2.fc39.x86_64 113/153 Installing : libevent-2.1.12-9.fc39.x86_64 114/153 Installing : openldap-2.6.7-1.fc39.x86_64 115/153 Installing : libcurl-8.2.1-5.fc39.x86_64 116/153 Installing : elfutils-libs-0.191-2.fc39.x86_64 117/153 Installing : elfutils-debuginfod-client-0.191-2.fc39.x86_64 118/153 Installing : binutils-gold-2.40-14.fc39.x86_64 119/153 Running scriptlet: binutils-gold-2.40-14.fc39.x86_64 119/153 Installing : binutils-2.40-14.fc39.x86_64 120/153 Running scriptlet: binutils-2.40-14.fc39.x86_64 120/153 Installing : elfutils-0.191-2.fc39.x86_64 121/153 Installing : gdb-minimal-15.1-1.fc39.x86_64 122/153 Installing : debugedit-5.0-12.fc39.x86_64 123/153 Installing : curl-8.2.1-5.fc39.x86_64 124/153 Installing : rpm-sequoia-1.7.0-1.fc39.x86_64 125/153 Installing : rpm-libs-4.19.1.1-1.fc39.x86_64 126/153 Running scriptlet: rpm-4.19.1.1-1.fc39.x86_64 127/153 Installing : rpm-4.19.1.1-1.fc39.x86_64 127/153 Installing : efi-srpm-macros-5-9.fc39.noarch 128/153 Installing : lua-srpm-macros-1-13.fc39.noarch 129/153 Installing : rpmautospec-rpm-macros-0.7.2-1.fc39.noarch 130/153 Installing : rpm-build-libs-4.19.1.1-1.fc39.x86_64 131/153 Installing : libsemanage-3.5-4.fc39.x86_64 132/153 Installing : shadow-utils-2:4.14.0-2.fc39.x86_64 133/153 Running scriptlet: libutempter-1.2.1-10.fc39.x86_64 134/153 Installing : libutempter-1.2.1-10.fc39.x86_64 134/153 Installing : patch-2.7.6-22.fc39.x86_64 135/153 Installing : tar-2:1.35-2.fc39.x86_64 136/153 Installing : package-notes-srpm-macros-0.5-9.fc39.noarch 137/153 Installing : openblas-srpm-macros-2-14.fc39.noarch 138/153 Installing : ocaml-srpm-macros-8-2.fc39.noarch 139/153 Installing : kernel-srpm-macros-1.0-20.fc39.noarch 140/153 Installing : gnat-srpm-macros-6-3.fc39.noarch 141/153 Installing : ghc-srpm-macros-1.6.1-2.fc39.noarch 142/153 Installing : fpc-srpm-macros-1.3-8.fc39.noarch 143/153 Installing : fonts-srpm-macros-1:2.0.5-12.fc39.noarch 144/153 Installing : forge-srpm-macros-0.3.1-1.fc39.noarch 145/153 Installing : go-srpm-macros-3.5.0-1.fc39.noarch 146/153 Installing : python-srpm-macros-3.12-8.fc39.noarch 147/153 Installing : redhat-rpm-config-266-1.fc39.noarch 148/153 Installing : rpm-build-4.19.1.1-1.fc39.x86_64 149/153 Installing : pyproject-srpm-macros-1.13.0-1.fc39.noarch 150/153 Installing : util-linux-2.39.4-1.fc39.x86_64 151/153 Running scriptlet: util-linux-2.39.4-1.fc39.x86_64 151/153 Installing : which-2.21-40.fc39.x86_64 152/153 Installing : info-7.0.3-3.fc39.x86_64 153/153 Running scriptlet: filesystem-3.18-6.fc39.x86_64 153/153 Running scriptlet: ca-certificates-2023.2.60_v7.0.306-2.fc39.noarch 153/153 Running scriptlet: authselect-libs-1.4.3-1.fc39.x86_64 153/153 Running scriptlet: rpm-4.19.1.1-1.fc39.x86_64 153/153 Running scriptlet: info-7.0.3-3.fc39.x86_64 153/153 Verifying : authselect-1.4.3-1.fc39.x86_64 1/153 Verifying : authselect-libs-1.4.3-1.fc39.x86_64 2/153 Verifying : basesystem-11-18.fc39.noarch 3/153 Verifying : bzip2-1.0.8-16.fc39.x86_64 4/153 Verifying : bzip2-libs-1.0.8-16.fc39.x86_64 5/153 Verifying : ca-certificates-2023.2.60_v7.0.306-2.fc39.noarch 6/153 Verifying : cpio-2.14-4.fc39.x86_64 7/153 Verifying : cracklib-2.9.11-2.fc39.x86_64 8/153 Verifying : cyrus-sasl-lib-2.1.28-11.fc39.x86_64 9/153 Verifying : diffutils-3.10-3.fc39.x86_64 10/153 Verifying : dwz-0.15-3.fc39.x86_64 11/153 Verifying : ed-1.19-4.fc39.x86_64 12/153 Verifying : efi-srpm-macros-5-9.fc39.noarch 13/153 Verifying : file-5.44-5.fc39.x86_64 14/153 Verifying : file-libs-5.44-5.fc39.x86_64 15/153 Verifying : filesystem-3.18-6.fc39.x86_64 16/153 Verifying : fonts-srpm-macros-1:2.0.5-12.fc39.noarch 17/153 Verifying : fpc-srpm-macros-1.3-8.fc39.noarch 18/153 Verifying : gawk-5.2.2-2.fc39.x86_64 19/153 Verifying : gdbm-libs-1:1.23-4.fc39.x86_64 20/153 Verifying : ghc-srpm-macros-1.6.1-2.fc39.noarch 21/153 Verifying : gmp-1:6.2.1-5.fc39.x86_64 22/153 Verifying : gnat-srpm-macros-6-3.fc39.noarch 23/153 Verifying : grep-3.11-3.fc39.x86_64 24/153 Verifying : gzip-1.12-6.fc39.x86_64 25/153 Verifying : info-7.0.3-3.fc39.x86_64 26/153 Verifying : jansson-2.13.1-7.fc39.x86_64 27/153 Verifying : kernel-srpm-macros-1.0-20.fc39.noarch 28/153 Verifying : libattr-2.5.1-8.fc39.x86_64 29/153 Verifying : libbrotli-1.1.0-1.fc39.x86_64 30/153 Verifying : libcap-ng-0.8.3-8.fc39.x86_64 31/153 Verifying : libcom_err-1.47.0-2.fc39.x86_64 32/153 Verifying : libdb-5.3.28-56.fc39.x86_64 33/153 Verifying : libevent-2.1.12-9.fc39.x86_64 34/153 Verifying : libffi-3.4.4-4.fc39.x86_64 35/153 Verifying : libnsl2-2.0.0-6.fc39.x86_64 36/153 Verifying : libpkgconf-1.9.5-2.fc39.x86_64 37/153 Verifying : libpsl-0.21.2-4.fc39.x86_64 38/153 Verifying : libpwquality-1.4.5-6.fc39.x86_64 39/153 Verifying : libselinux-3.5-5.fc39.x86_64 40/153 Verifying : libsemanage-3.5-4.fc39.x86_64 41/153 Verifying : libsepol-3.5-2.fc39.x86_64 42/153 Verifying : libsigsegv-2.14-5.fc39.x86_64 43/153 Verifying : libtasn1-4.19.0-3.fc39.x86_64 44/153 Verifying : libtool-ltdl-2.4.7-7.fc39.x86_64 45/153 Verifying : libunistring-1.1-5.fc39.x86_64 46/153 Verifying : libutempter-1.2.1-10.fc39.x86_64 47/153 Verifying : libverto-0.3.2-6.fc39.x86_64 48/153 Verifying : libxcrypt-4.4.36-2.fc39.x86_64 49/153 Verifying : libxml2-2.10.4-3.fc39.x86_64 50/153 Verifying : lua-libs-5.4.6-3.fc39.x86_64 51/153 Verifying : lz4-libs-1.9.4-4.fc39.x86_64 52/153 Verifying : mpfr-4.2.0-3.fc39.x86_64 53/153 Verifying : ocaml-srpm-macros-8-2.fc39.noarch 54/153 Verifying : openblas-srpm-macros-2-14.fc39.noarch 55/153 Verifying : package-notes-srpm-macros-0.5-9.fc39.noarch 56/153 Verifying : patch-2.7.6-22.fc39.x86_64 57/153 Verifying : pcre2-10.42-1.fc39.2.x86_64 58/153 Verifying : pcre2-syntax-10.42-1.fc39.2.noarch 59/153 Verifying : perl-srpm-macros-1-51.fc39.noarch 60/153 Verifying : pkgconf-1.9.5-2.fc39.x86_64 61/153 Verifying : pkgconf-m4-1.9.5-2.fc39.noarch 62/153 Verifying : pkgconf-pkg-config-1.9.5-2.fc39.x86_64 63/153 Verifying : popt-1.19-3.fc39.x86_64 64/153 Verifying : sed-4.8-14.fc39.x86_64 65/153 Verifying : setup-2.14.4-1.fc39.noarch 66/153 Verifying : sqlite-libs-3.42.0-7.fc39.x86_64 67/153 Verifying : tar-2:1.35-2.fc39.x86_64 68/153 Verifying : unzip-6.0-62.fc39.x86_64 69/153 Verifying : which-2.21-40.fc39.x86_64 70/153 Verifying : xxhash-libs-0.8.2-1.fc39.x86_64 71/153 Verifying : xz-5.4.4-1.fc39.x86_64 72/153 Verifying : xz-libs-5.4.4-1.fc39.x86_64 73/153 Verifying : zip-3.0-39.fc39.x86_64 74/153 Verifying : zlib-1.2.13-4.fc39.x86_64 75/153 Verifying : alternatives-1.26-1.fc39.x86_64 76/153 Verifying : ansible-srpm-macros-1-12.fc39.noarch 77/153 Verifying : audit-libs-3.1.5-1.fc39.x86_64 78/153 Verifying : bash-5.2.26-1.fc39.x86_64 79/153 Verifying : binutils-2.40-14.fc39.x86_64 80/153 Verifying : binutils-gold-2.40-14.fc39.x86_64 81/153 Verifying : coreutils-9.3-6.fc39.x86_64 82/153 Verifying : coreutils-common-9.3-6.fc39.x86_64 83/153 Verifying : crypto-policies-20231204-1.git1e3a2e4.fc39.noarc 84/153 Verifying : curl-8.2.1-5.fc39.x86_64 85/153 Verifying : debugedit-5.0-12.fc39.x86_64 86/153 Verifying : elfutils-0.191-2.fc39.x86_64 87/153 Verifying : elfutils-debuginfod-client-0.191-2.fc39.x86_64 88/153 Verifying : elfutils-default-yama-scope-0.191-2.fc39.noarch 89/153 Verifying : elfutils-libelf-0.191-2.fc39.x86_64 90/153 Verifying : elfutils-libs-0.191-2.fc39.x86_64 91/153 Verifying : fedora-gpg-keys-39-2.noarch 92/153 Verifying : fedora-release-39-36.noarch 93/153 Verifying : fedora-release-common-39-36.noarch 94/153 Verifying : fedora-release-identity-basic-39-36.noarch 95/153 Verifying : fedora-repos-39-2.noarch 96/153 Verifying : findutils-1:4.9.0-6.fc39.x86_64 97/153 Verifying : forge-srpm-macros-0.3.1-1.fc39.noarch 98/153 Verifying : gdb-minimal-15.1-1.fc39.x86_64 99/153 Verifying : glibc-2.38-18.fc39.x86_64 100/153 Verifying : glibc-common-2.38-18.fc39.x86_64 101/153 Verifying : glibc-gconv-extra-2.38-18.fc39.x86_64 102/153 Verifying : glibc-minimal-langpack-2.38-18.fc39.x86_64 103/153 Verifying : go-srpm-macros-3.5.0-1.fc39.noarch 104/153 Verifying : keyutils-libs-1.6.3-1.fc39.x86_64 105/153 Verifying : krb5-libs-1.21.3-1.fc39.x86_64 106/153 Verifying : libacl-2.3.1-9.fc39.x86_64 107/153 Verifying : libarchive-3.7.1-2.fc39.x86_64 108/153 Verifying : libblkid-2.39.4-1.fc39.x86_64 109/153 Verifying : libcap-2.48-9.fc39.x86_64 110/153 Verifying : libcurl-8.2.1-5.fc39.x86_64 111/153 Verifying : libeconf-0.5.2-2.fc39.x86_64 112/153 Verifying : libfdisk-2.39.4-1.fc39.x86_64 113/153 Verifying : libgcc-13.3.1-3.fc39.x86_64 114/153 Verifying : libgomp-13.3.1-3.fc39.x86_64 115/153 Verifying : libidn2-2.3.7-1.fc39.x86_64 116/153 Verifying : libmount-2.39.4-1.fc39.x86_64 117/153 Verifying : libnghttp2-1.55.1-5.fc39.x86_64 118/153 Verifying : libsmartcols-2.39.4-1.fc39.x86_64 119/153 Verifying : libssh-0.10.6-2.fc39.x86_64 120/153 Verifying : libssh-config-0.10.6-2.fc39.noarch 121/153 Verifying : libstdc++-13.3.1-3.fc39.x86_64 122/153 Verifying : libtirpc-1.3.5-0.fc39.x86_64 123/153 Verifying : libuuid-2.39.4-1.fc39.x86_64 124/153 Verifying : libzstd-1.5.6-1.fc39.x86_64 125/153 Verifying : lua-srpm-macros-1-13.fc39.noarch 126/153 Verifying : ncurses-base-6.4-7.20230520.fc39.1.noarch 127/153 Verifying : ncurses-libs-6.4-7.20230520.fc39.1.x86_64 128/153 Verifying : openldap-2.6.7-1.fc39.x86_64 129/153 Verifying : openssl-libs-1:3.1.4-4.fc39.x86_64 130/153 Verifying : p11-kit-0.25.5-1.fc39.x86_64 131/153 Verifying : p11-kit-trust-0.25.5-1.fc39.x86_64 132/153 Verifying : pam-1.5.3-3.fc39.x86_64 133/153 Verifying : pam-libs-1.5.3-3.fc39.x86_64 134/153 Verifying : publicsuffix-list-dafsa-20240107-1.fc39.noarch 135/153 Verifying : pyproject-srpm-macros-1.13.0-1.fc39.noarch 136/153 Verifying : python-srpm-macros-3.12-8.fc39.noarch 137/153 Verifying : qt5-srpm-macros-5.15.14-2.fc39.noarch 138/153 Verifying : qt6-srpm-macros-6.6.2-1.fc39.noarch 139/153 Verifying : readline-8.2-6.fc39.x86_64 140/153 Verifying : redhat-rpm-config-266-1.fc39.noarch 141/153 Verifying : rpm-4.19.1.1-1.fc39.x86_64 142/153 Verifying : rpm-build-4.19.1.1-1.fc39.x86_64 143/153 Verifying : rpm-build-libs-4.19.1.1-1.fc39.x86_64 144/153 Verifying : rpm-libs-4.19.1.1-1.fc39.x86_64 145/153 Verifying : rpm-sequoia-1.7.0-1.fc39.x86_64 146/153 Verifying : rpmautospec-rpm-macros-0.7.2-1.fc39.noarch 147/153 Verifying : rust-srpm-macros-26.3-1.fc39.noarch 148/153 Verifying : shadow-utils-2:4.14.0-2.fc39.x86_64 149/153 Verifying : systemd-libs-254.18-1.fc39.x86_64 150/153 Verifying : util-linux-2.39.4-1.fc39.x86_64 151/153 Verifying : util-linux-core-2.39.4-1.fc39.x86_64 152/153 Verifying : zstd-1.5.6-1.fc39.x86_64 153/153 Installed products updated. Installed: alternatives-1.26-1.fc39.x86_64 ansible-srpm-macros-1-12.fc39.noarch audit-libs-3.1.5-1.fc39.x86_64 authselect-1.4.3-1.fc39.x86_64 authselect-libs-1.4.3-1.fc39.x86_64 basesystem-11-18.fc39.noarch bash-5.2.26-1.fc39.x86_64 binutils-2.40-14.fc39.x86_64 binutils-gold-2.40-14.fc39.x86_64 bzip2-1.0.8-16.fc39.x86_64 bzip2-libs-1.0.8-16.fc39.x86_64 ca-certificates-2023.2.60_v7.0.306-2.fc39.noarch coreutils-9.3-6.fc39.x86_64 coreutils-common-9.3-6.fc39.x86_64 cpio-2.14-4.fc39.x86_64 cracklib-2.9.11-2.fc39.x86_64 crypto-policies-20231204-1.git1e3a2e4.fc39.noarch curl-8.2.1-5.fc39.x86_64 cyrus-sasl-lib-2.1.28-11.fc39.x86_64 debugedit-5.0-12.fc39.x86_64 diffutils-3.10-3.fc39.x86_64 dwz-0.15-3.fc39.x86_64 ed-1.19-4.fc39.x86_64 efi-srpm-macros-5-9.fc39.noarch elfutils-0.191-2.fc39.x86_64 elfutils-debuginfod-client-0.191-2.fc39.x86_64 elfutils-default-yama-scope-0.191-2.fc39.noarch elfutils-libelf-0.191-2.fc39.x86_64 elfutils-libs-0.191-2.fc39.x86_64 fedora-gpg-keys-39-2.noarch fedora-release-39-36.noarch fedora-release-common-39-36.noarch fedora-release-identity-basic-39-36.noarch fedora-repos-39-2.noarch file-5.44-5.fc39.x86_64 file-libs-5.44-5.fc39.x86_64 filesystem-3.18-6.fc39.x86_64 findutils-1:4.9.0-6.fc39.x86_64 fonts-srpm-macros-1:2.0.5-12.fc39.noarch forge-srpm-macros-0.3.1-1.fc39.noarch fpc-srpm-macros-1.3-8.fc39.noarch gawk-5.2.2-2.fc39.x86_64 gdb-minimal-15.1-1.fc39.x86_64 gdbm-libs-1:1.23-4.fc39.x86_64 ghc-srpm-macros-1.6.1-2.fc39.noarch glibc-2.38-18.fc39.x86_64 glibc-common-2.38-18.fc39.x86_64 glibc-gconv-extra-2.38-18.fc39.x86_64 glibc-minimal-langpack-2.38-18.fc39.x86_64 gmp-1:6.2.1-5.fc39.x86_64 gnat-srpm-macros-6-3.fc39.noarch go-srpm-macros-3.5.0-1.fc39.noarch grep-3.11-3.fc39.x86_64 gzip-1.12-6.fc39.x86_64 info-7.0.3-3.fc39.x86_64 jansson-2.13.1-7.fc39.x86_64 kernel-srpm-macros-1.0-20.fc39.noarch keyutils-libs-1.6.3-1.fc39.x86_64 krb5-libs-1.21.3-1.fc39.x86_64 libacl-2.3.1-9.fc39.x86_64 libarchive-3.7.1-2.fc39.x86_64 libattr-2.5.1-8.fc39.x86_64 libblkid-2.39.4-1.fc39.x86_64 libbrotli-1.1.0-1.fc39.x86_64 libcap-2.48-9.fc39.x86_64 libcap-ng-0.8.3-8.fc39.x86_64 libcom_err-1.47.0-2.fc39.x86_64 libcurl-8.2.1-5.fc39.x86_64 libdb-5.3.28-56.fc39.x86_64 libeconf-0.5.2-2.fc39.x86_64 libevent-2.1.12-9.fc39.x86_64 libfdisk-2.39.4-1.fc39.x86_64 libffi-3.4.4-4.fc39.x86_64 libgcc-13.3.1-3.fc39.x86_64 libgomp-13.3.1-3.fc39.x86_64 libidn2-2.3.7-1.fc39.x86_64 libmount-2.39.4-1.fc39.x86_64 libnghttp2-1.55.1-5.fc39.x86_64 libnsl2-2.0.0-6.fc39.x86_64 libpkgconf-1.9.5-2.fc39.x86_64 libpsl-0.21.2-4.fc39.x86_64 libpwquality-1.4.5-6.fc39.x86_64 libselinux-3.5-5.fc39.x86_64 libsemanage-3.5-4.fc39.x86_64 libsepol-3.5-2.fc39.x86_64 libsigsegv-2.14-5.fc39.x86_64 libsmartcols-2.39.4-1.fc39.x86_64 libssh-0.10.6-2.fc39.x86_64 libssh-config-0.10.6-2.fc39.noarch libstdc++-13.3.1-3.fc39.x86_64 libtasn1-4.19.0-3.fc39.x86_64 libtirpc-1.3.5-0.fc39.x86_64 libtool-ltdl-2.4.7-7.fc39.x86_64 libunistring-1.1-5.fc39.x86_64 libutempter-1.2.1-10.fc39.x86_64 libuuid-2.39.4-1.fc39.x86_64 libverto-0.3.2-6.fc39.x86_64 libxcrypt-4.4.36-2.fc39.x86_64 libxml2-2.10.4-3.fc39.x86_64 libzstd-1.5.6-1.fc39.x86_64 lua-libs-5.4.6-3.fc39.x86_64 lua-srpm-macros-1-13.fc39.noarch lz4-libs-1.9.4-4.fc39.x86_64 mpfr-4.2.0-3.fc39.x86_64 ncurses-base-6.4-7.20230520.fc39.1.noarch ncurses-libs-6.4-7.20230520.fc39.1.x86_64 ocaml-srpm-macros-8-2.fc39.noarch openblas-srpm-macros-2-14.fc39.noarch openldap-2.6.7-1.fc39.x86_64 openssl-libs-1:3.1.4-4.fc39.x86_64 p11-kit-0.25.5-1.fc39.x86_64 p11-kit-trust-0.25.5-1.fc39.x86_64 package-notes-srpm-macros-0.5-9.fc39.noarch pam-1.5.3-3.fc39.x86_64 pam-libs-1.5.3-3.fc39.x86_64 patch-2.7.6-22.fc39.x86_64 pcre2-10.42-1.fc39.2.x86_64 pcre2-syntax-10.42-1.fc39.2.noarch perl-srpm-macros-1-51.fc39.noarch pkgconf-1.9.5-2.fc39.x86_64 pkgconf-m4-1.9.5-2.fc39.noarch pkgconf-pkg-config-1.9.5-2.fc39.x86_64 popt-1.19-3.fc39.x86_64 publicsuffix-list-dafsa-20240107-1.fc39.noarch pyproject-srpm-macros-1.13.0-1.fc39.noarch python-srpm-macros-3.12-8.fc39.noarch qt5-srpm-macros-5.15.14-2.fc39.noarch qt6-srpm-macros-6.6.2-1.fc39.noarch readline-8.2-6.fc39.x86_64 redhat-rpm-config-266-1.fc39.noarch rpm-4.19.1.1-1.fc39.x86_64 rpm-build-4.19.1.1-1.fc39.x86_64 rpm-build-libs-4.19.1.1-1.fc39.x86_64 rpm-libs-4.19.1.1-1.fc39.x86_64 rpm-sequoia-1.7.0-1.fc39.x86_64 rpmautospec-rpm-macros-0.7.2-1.fc39.noarch rust-srpm-macros-26.3-1.fc39.noarch sed-4.8-14.fc39.x86_64 setup-2.14.4-1.fc39.noarch shadow-utils-2:4.14.0-2.fc39.x86_64 sqlite-libs-3.42.0-7.fc39.x86_64 systemd-libs-254.18-1.fc39.x86_64 tar-2:1.35-2.fc39.x86_64 unzip-6.0-62.fc39.x86_64 util-linux-2.39.4-1.fc39.x86_64 util-linux-core-2.39.4-1.fc39.x86_64 which-2.21-40.fc39.x86_64 xxhash-libs-0.8.2-1.fc39.x86_64 xz-5.4.4-1.fc39.x86_64 xz-libs-5.4.4-1.fc39.x86_64 zip-3.0-39.fc39.x86_64 zlib-1.2.13-4.fc39.x86_64 zstd-1.5.6-1.fc39.x86_64 Complete! Finish: installing minimal buildroot with dnf Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: alternatives-1.26-1.fc39.x86_64 ansible-srpm-macros-1-12.fc39.noarch audit-libs-3.1.5-1.fc39.x86_64 authselect-1.4.3-1.fc39.x86_64 authselect-libs-1.4.3-1.fc39.x86_64 basesystem-11-18.fc39.noarch bash-5.2.26-1.fc39.x86_64 binutils-2.40-14.fc39.x86_64 binutils-gold-2.40-14.fc39.x86_64 bzip2-1.0.8-16.fc39.x86_64 bzip2-libs-1.0.8-16.fc39.x86_64 ca-certificates-2023.2.60_v7.0.306-2.fc39.noarch coreutils-9.3-6.fc39.x86_64 coreutils-common-9.3-6.fc39.x86_64 cpio-2.14-4.fc39.x86_64 cracklib-2.9.11-2.fc39.x86_64 crypto-policies-20231204-1.git1e3a2e4.fc39.noarch curl-8.2.1-5.fc39.x86_64 cyrus-sasl-lib-2.1.28-11.fc39.x86_64 debugedit-5.0-12.fc39.x86_64 diffutils-3.10-3.fc39.x86_64 dwz-0.15-3.fc39.x86_64 ed-1.19-4.fc39.x86_64 efi-srpm-macros-5-9.fc39.noarch elfutils-0.191-2.fc39.x86_64 elfutils-debuginfod-client-0.191-2.fc39.x86_64 elfutils-default-yama-scope-0.191-2.fc39.noarch elfutils-libelf-0.191-2.fc39.x86_64 elfutils-libs-0.191-2.fc39.x86_64 fedora-gpg-keys-39-2.noarch fedora-release-39-36.noarch fedora-release-common-39-36.noarch fedora-release-identity-basic-39-36.noarch fedora-repos-39-2.noarch file-5.44-5.fc39.x86_64 file-libs-5.44-5.fc39.x86_64 filesystem-3.18-6.fc39.x86_64 findutils-4.9.0-6.fc39.x86_64 fonts-srpm-macros-2.0.5-12.fc39.noarch forge-srpm-macros-0.3.1-1.fc39.noarch fpc-srpm-macros-1.3-8.fc39.noarch gawk-5.2.2-2.fc39.x86_64 gdb-minimal-15.1-1.fc39.x86_64 gdbm-libs-1.23-4.fc39.x86_64 ghc-srpm-macros-1.6.1-2.fc39.noarch glibc-2.38-18.fc39.x86_64 glibc-common-2.38-18.fc39.x86_64 glibc-gconv-extra-2.38-18.fc39.x86_64 glibc-minimal-langpack-2.38-18.fc39.x86_64 gmp-6.2.1-5.fc39.x86_64 gnat-srpm-macros-6-3.fc39.noarch go-srpm-macros-3.5.0-1.fc39.noarch gpg-pubkey-18b8e74c-62f2920f grep-3.11-3.fc39.x86_64 gzip-1.12-6.fc39.x86_64 info-7.0.3-3.fc39.x86_64 jansson-2.13.1-7.fc39.x86_64 kernel-srpm-macros-1.0-20.fc39.noarch keyutils-libs-1.6.3-1.fc39.x86_64 krb5-libs-1.21.3-1.fc39.x86_64 libacl-2.3.1-9.fc39.x86_64 libarchive-3.7.1-2.fc39.x86_64 libattr-2.5.1-8.fc39.x86_64 libblkid-2.39.4-1.fc39.x86_64 libbrotli-1.1.0-1.fc39.x86_64 libcap-2.48-9.fc39.x86_64 libcap-ng-0.8.3-8.fc39.x86_64 libcom_err-1.47.0-2.fc39.x86_64 libcurl-8.2.1-5.fc39.x86_64 libdb-5.3.28-56.fc39.x86_64 libeconf-0.5.2-2.fc39.x86_64 libevent-2.1.12-9.fc39.x86_64 libfdisk-2.39.4-1.fc39.x86_64 libffi-3.4.4-4.fc39.x86_64 libgcc-13.3.1-3.fc39.x86_64 libgomp-13.3.1-3.fc39.x86_64 libidn2-2.3.7-1.fc39.x86_64 libmount-2.39.4-1.fc39.x86_64 libnghttp2-1.55.1-5.fc39.x86_64 libnsl2-2.0.0-6.fc39.x86_64 libpkgconf-1.9.5-2.fc39.x86_64 libpsl-0.21.2-4.fc39.x86_64 libpwquality-1.4.5-6.fc39.x86_64 libselinux-3.5-5.fc39.x86_64 libsemanage-3.5-4.fc39.x86_64 libsepol-3.5-2.fc39.x86_64 libsigsegv-2.14-5.fc39.x86_64 libsmartcols-2.39.4-1.fc39.x86_64 libssh-0.10.6-2.fc39.x86_64 libssh-config-0.10.6-2.fc39.noarch libstdc++-13.3.1-3.fc39.x86_64 libtasn1-4.19.0-3.fc39.x86_64 libtirpc-1.3.5-0.fc39.x86_64 libtool-ltdl-2.4.7-7.fc39.x86_64 libunistring-1.1-5.fc39.x86_64 libutempter-1.2.1-10.fc39.x86_64 libuuid-2.39.4-1.fc39.x86_64 libverto-0.3.2-6.fc39.x86_64 libxcrypt-4.4.36-2.fc39.x86_64 libxml2-2.10.4-3.fc39.x86_64 libzstd-1.5.6-1.fc39.x86_64 lua-libs-5.4.6-3.fc39.x86_64 lua-srpm-macros-1-13.fc39.noarch lz4-libs-1.9.4-4.fc39.x86_64 mpfr-4.2.0-3.fc39.x86_64 ncurses-base-6.4-7.20230520.fc39.1.noarch ncurses-libs-6.4-7.20230520.fc39.1.x86_64 ocaml-srpm-macros-8-2.fc39.noarch openblas-srpm-macros-2-14.fc39.noarch openldap-2.6.7-1.fc39.x86_64 openssl-libs-3.1.4-4.fc39.x86_64 p11-kit-0.25.5-1.fc39.x86_64 p11-kit-trust-0.25.5-1.fc39.x86_64 package-notes-srpm-macros-0.5-9.fc39.noarch pam-1.5.3-3.fc39.x86_64 pam-libs-1.5.3-3.fc39.x86_64 patch-2.7.6-22.fc39.x86_64 pcre2-10.42-1.fc39.2.x86_64 pcre2-syntax-10.42-1.fc39.2.noarch perl-srpm-macros-1-51.fc39.noarch pkgconf-1.9.5-2.fc39.x86_64 pkgconf-m4-1.9.5-2.fc39.noarch pkgconf-pkg-config-1.9.5-2.fc39.x86_64 popt-1.19-3.fc39.x86_64 publicsuffix-list-dafsa-20240107-1.fc39.noarch pyproject-srpm-macros-1.13.0-1.fc39.noarch python-srpm-macros-3.12-8.fc39.noarch qt5-srpm-macros-5.15.14-2.fc39.noarch qt6-srpm-macros-6.6.2-1.fc39.noarch readline-8.2-6.fc39.x86_64 redhat-rpm-config-266-1.fc39.noarch rpm-4.19.1.1-1.fc39.x86_64 rpm-build-4.19.1.1-1.fc39.x86_64 rpm-build-libs-4.19.1.1-1.fc39.x86_64 rpm-libs-4.19.1.1-1.fc39.x86_64 rpm-sequoia-1.7.0-1.fc39.x86_64 rpmautospec-rpm-macros-0.7.2-1.fc39.noarch rust-srpm-macros-26.3-1.fc39.noarch sed-4.8-14.fc39.x86_64 setup-2.14.4-1.fc39.noarch shadow-utils-4.14.0-2.fc39.x86_64 sqlite-libs-3.42.0-7.fc39.x86_64 systemd-libs-254.18-1.fc39.x86_64 tar-1.35-2.fc39.x86_64 unzip-6.0-62.fc39.x86_64 util-linux-2.39.4-1.fc39.x86_64 util-linux-core-2.39.4-1.fc39.x86_64 which-2.21-40.fc39.x86_64 xxhash-libs-0.8.2-1.fc39.x86_64 xz-5.4.4-1.fc39.x86_64 xz-libs-5.4.4-1.fc39.x86_64 zip-3.0-39.fc39.x86_64 zlib-1.2.13-4.fc39.x86_64 zstd-1.5.6-1.fc39.x86_64 Start: buildsrpm Start: rpmbuild -bs warning: source_date_epoch_from_changelog set but %changelog is missing Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm RPM build warnings: source_date_epoch_from_changelog set but %changelog is missing Finish: rpmbuild -bs cp: preserving permissions for ‘/var/lib/copr-rpmbuild/results/chroot_scan/var/lib/mock/fedora-39-x86_64-1727920733.819871/root/var/log’: No such file or directory INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-39-x86_64-1727920733.819871/root/var/log/dnf.log /var/lib/mock/fedora-39-x86_64-1727920733.819871/root/var/log/dnf.librepo.log /var/lib/mock/fedora-39-x86_64-1727920733.819871/root/var/log/dnf.rpm.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-xxcke0zv/R-CRAN-seqminer/R-CRAN-seqminer.spec) Config(child) 0 minutes 25 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot INFO: Start(/var/lib/copr-rpmbuild/results/R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm) Config(fedora-39-x86_64) Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-39-x86_64-1727920733.819871/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Buildroot is handled by package management from host and used with --installroot: rpm-4.19.1.1-1.fc39.x86_64 rpm-sequoia-1.6.0-1.fc39.x86_64 python3-dnf-4.21.1-1.fc39.noarch python3-dnf-plugins-core-4.9.0-1.fc39.noarch yum-4.21.1-1.fc39.noarch dnf5-5.1.17-2.fc39.x86_64 dnf5-plugins-5.1.17-2.fc39.x86_64 Finish: chroot init Start: build phase for R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm Start: build setup for R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm warning: source_date_epoch_from_changelog set but %changelog is missing Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm RPM build warnings: source_date_epoch_from_changelog set but %changelog is missing No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 36 kB/s | 1.5 kB 00:00 Copr repository 30 MB/s | 28 MB 00:00 fedora 1.1 MB/s | 31 kB 00:00 updates 1.0 MB/s | 29 kB 00:00 Dependencies resolved. ======================================================================================== Package Arch Version Repo Size ======================================================================================== Installing: R-devel x86_64 4.3.3-2.fc39 updates 10 k Installing dependencies: R-core x86_64 4.3.3-2.fc39 updates 64 M R-core-devel x86_64 4.3.3-2.fc39 updates 93 k R-java x86_64 4.3.3-2.fc39 updates 11 k R-java-devel x86_64 4.3.3-2.fc39 updates 10 k R-rpm-macros noarch 1.2.1-7.fc39 fedora 11 k abattis-cantarell-vf-fonts noarch 0.301-10.fc39 fedora 121 k alsa-lib x86_64 1.2.12-1.fc39 updates 521 k annobin-docs noarch 12.60-1.fc39 updates 88 k annobin-plugin-gcc x86_64 12.60-1.fc39 updates 965 k avahi-libs x86_64 0.8-24.fc39 fedora 67 k brotli x86_64 1.1.0-1.fc39 fedora 20 k brotli-devel x86_64 1.1.0-1.fc39 fedora 34 k bzip2-devel x86_64 1.0.8-16.fc39 fedora 214 k cairo x86_64 1.18.0-1.fc39 fedora 710 k cmake-filesystem x86_64 3.27.7-1.fc39 fedora 19 k copy-jdk-configs noarch 4.1-3.fc39 fedora 28 k cpp x86_64 13.3.1-3.fc39 updates 11 M crypto-policies-scripts noarch 20231204-1.git1e3a2e4.fc39 updates 117 k cups-libs x86_64 1:2.4.10-7.fc39 updates 268 k dbus-libs x86_64 1:1.14.10-1.fc39 fedora 156 k default-fonts-core-sans noarch 4.0-9.fc39 fedora 32 k desktop-file-utils x86_64 0.26-9.fc39 fedora 72 k emacs-filesystem noarch 1:29.4-2.fc39 updates 7.3 k expat x86_64 2.6.3-1.fc39 updates 114 k flexiblas x86_64 3.4.4-1.fc39 updates 25 k flexiblas-devel x86_64 3.4.4-1.fc39 updates 121 k flexiblas-netlib x86_64 3.4.4-1.fc39 updates 3.1 M flexiblas-netlib64 x86_64 3.4.4-1.fc39 updates 3.0 M flexiblas-openblas-openmp x86_64 3.4.4-1.fc39 updates 17 k flexiblas-openblas-openmp64 x86_64 3.4.4-1.fc39 updates 17 k fontconfig x86_64 2.14.2-6.fc39 updates 296 k fontconfig-devel x86_64 2.14.2-6.fc39 updates 164 k fonts-filesystem noarch 1:2.0.5-12.fc39 fedora 8.2 k freetype x86_64 2.13.1-2.fc39 fedora 414 k freetype-devel x86_64 2.13.1-2.fc39 fedora 950 k fribidi x86_64 1.0.13-2.fc39 fedora 91 k gc x86_64 8.2.2-4.fc39 fedora 110 k gcc x86_64 13.3.1-3.fc39 updates 34 M gcc-c++ x86_64 13.3.1-3.fc39 updates 13 M gcc-gfortran x86_64 13.3.1-3.fc39 updates 12 M gcc-plugin-annobin x86_64 13.3.1-3.fc39 updates 58 k gettext x86_64 0.22-2.fc39 fedora 1.1 M gettext-envsubst x86_64 0.22-2.fc39 fedora 36 k gettext-libs x86_64 0.22-2.fc39 fedora 328 k gettext-runtime x86_64 0.22-2.fc39 fedora 120 k glib2 x86_64 2.78.6-1.fc39 updates 2.8 M glib2-devel x86_64 2.78.6-1.fc39 updates 594 k glibc-devel x86_64 2.38-18.fc39 updates 86 k glibc-headers-x86 noarch 2.38-18.fc39 updates 571 k gnutls x86_64 3.8.6-1.fc39 updates 1.1 M google-noto-fonts-common noarch 20240101-1.fc39 updates 17 k google-noto-sans-vf-fonts noarch 20240101-1.fc39 updates 593 k graphite2 x86_64 1.3.14-12.fc39 fedora 95 k graphite2-devel x86_64 1.3.14-12.fc39 fedora 20 k guile22 x86_64 2.2.7-9.fc39 fedora 6.5 M harfbuzz x86_64 8.2.1-2.fc39 fedora 975 k harfbuzz-devel x86_64 8.2.1-2.fc39 fedora 450 k harfbuzz-icu x86_64 8.2.1-2.fc39 fedora 17 k java-21-openjdk x86_64 1:21.0.4.0.7-2.fc39 updates 426 k java-21-openjdk-devel x86_64 1:21.0.4.0.7-2.fc39 updates 5.0 M java-21-openjdk-headless x86_64 1:21.0.4.0.7-2.fc39 updates 48 M javapackages-filesystem noarch 6.1.0-10.fc39 fedora 12 k jbigkit-libs x86_64 2.1-26.fc39 fedora 53 k kernel-headers x86_64 6.10.3-200.fc39 updates 1.6 M libICE x86_64 1.0.10-11.fc39 fedora 70 k libRmath x86_64 4.3.3-2.fc39 updates 121 k libRmath-devel x86_64 4.3.3-2.fc39 updates 16 k libSM x86_64 1.2.3-13.fc39 fedora 41 k libX11 x86_64 1.8.9-1.fc39 updates 650 k libX11-common noarch 1.8.9-1.fc39 updates 176 k libX11-devel x86_64 1.8.9-1.fc39 updates 1.0 M libX11-xcb x86_64 1.8.9-1.fc39 updates 12 k libXau x86_64 1.0.11-3.fc39 fedora 31 k libXau-devel x86_64 1.0.11-3.fc39 fedora 14 k libXcomposite x86_64 0.4.5-10.fc39 fedora 23 k libXext x86_64 1.3.5-3.fc39 fedora 39 k libXft x86_64 2.3.8-3.fc39 fedora 72 k libXft-devel x86_64 2.3.8-3.fc39 fedora 50 k libXi x86_64 1.8.1-2.fc39 fedora 40 k libXmu x86_64 1.1.4-3.fc39 fedora 76 k libXrender x86_64 0.9.11-3.fc39 fedora 27 k libXrender-devel x86_64 0.9.11-3.fc39 fedora 19 k libXt x86_64 1.2.1-5.fc39 fedora 178 k libXtst x86_64 1.2.4-3.fc39 fedora 20 k libb2 x86_64 0.98.1-9.fc39 fedora 25 k libblkid-devel x86_64 2.39.4-1.fc39 updates 18 k libdatrie x86_64 0.2.13-7.fc39 fedora 32 k libffi-devel x86_64 3.4.4-4.fc39 fedora 29 k libfontenc x86_64 1.1.6-3.fc39 fedora 32 k libgfortran x86_64 13.3.1-3.fc39 updates 909 k libicu x86_64 73.2-2.fc39 fedora 11 M libicu-devel x86_64 73.2-2.fc39 fedora 924 k libjpeg-turbo x86_64 2.1.4-3.fc39 fedora 183 k liblerc x86_64 4.0.0-4.fc39 fedora 201 k libmount-devel x86_64 2.39.4-1.fc39 updates 18 k libmpc x86_64 1.3.1-3.fc39 fedora 70 k libpng x86_64 2:1.6.37-15.fc39 fedora 119 k libpng-devel x86_64 2:1.6.37-15.fc39 fedora 291 k libquadmath x86_64 13.3.1-3.fc39 updates 205 k libquadmath-devel x86_64 13.3.1-3.fc39 updates 47 k libselinux-devel x86_64 3.5-5.fc39 fedora 151 k libsepol-devel x86_64 3.5-2.fc39 fedora 49 k libstdc++-devel x86_64 13.3.1-3.fc39 updates 2.6 M libthai x86_64 0.1.29-6.fc39 fedora 213 k libtiff x86_64 4.4.0-8.fc39 fedora 202 k libtirpc-devel x86_64 1.3.5-0.fc39 updates 125 k libwebp x86_64 1.3.2-2.fc39 fedora 284 k libxcb x86_64 1.13.1-12.fc39 fedora 233 k libxcb-devel x86_64 1.13.1-12.fc39 fedora 1.4 M libxcrypt-devel x86_64 4.4.36-2.fc39 fedora 30 k libxml2-devel x86_64 2.10.4-3.fc39 fedora 527 k lksctp-tools x86_64 1.0.20-1.fc39 updates 97 k lua x86_64 5.4.6-3.fc39 fedora 191 k lua-posix x86_64 36.2.1-3.fc39 fedora 143 k make x86_64 1:4.4.1-2.fc39 fedora 589 k mkfontscale x86_64 1.2.2-4.fc39 fedora 32 k mpdecimal x86_64 2.5.1-7.fc39 fedora 89 k nettle x86_64 3.9.1-2.fc39 fedora 425 k nspr x86_64 4.35.0-23.fc39 updates 136 k nss x86_64 3.104.0-1.fc39 updates 707 k nss-softokn x86_64 3.104.0-1.fc39 updates 421 k nss-softokn-freebl x86_64 3.104.0-1.fc39 updates 300 k nss-sysinit x86_64 3.104.0-1.fc39 updates 18 k nss-util x86_64 3.104.0-1.fc39 updates 88 k openblas x86_64 0.3.21-6.fc39 fedora 35 k openblas-openmp x86_64 0.3.21-6.fc39 fedora 4.9 M openblas-openmp64 x86_64 0.3.21-6.fc39 fedora 4.8 M pango x86_64 1.51.0-1.fc39 fedora 343 k pcre2-devel x86_64 10.42-1.fc39.2 fedora 505 k pcre2-utf16 x86_64 10.42-1.fc39.2 fedora 212 k pcre2-utf32 x86_64 10.42-1.fc39.2 fedora 200 k pixman x86_64 0.42.2-2.fc39 fedora 288 k python-pip-wheel noarch 23.2.1-2.fc39 updates 1.5 M python3 x86_64 3.12.6-1.fc39 updates 28 k python3-libs x86_64 3.12.6-1.fc39 updates 9.2 M python3-setuptools noarch 67.7.2-8.fc39 updates 1.5 M sysprof-capture-devel x86_64 45.1-1.fc39 updates 59 k tcl x86_64 1:8.6.12-5.fc39 fedora 1.1 M tcl-devel x86_64 1:8.6.12-5.fc39 fedora 169 k tk x86_64 1:8.6.12-5.fc39 fedora 1.6 M tk-devel x86_64 1:8.6.12-5.fc39 fedora 537 k tre x86_64 0.8.0-41.20140228gitc2f5d13.fc39 fedora 43 k tre-common noarch 0.8.0-41.20140228gitc2f5d13.fc39 fedora 31 k tre-devel x86_64 0.8.0-41.20140228gitc2f5d13.fc39 fedora 12 k ttmkfdir x86_64 3.0.9-69.fc39 fedora 56 k tzdata noarch 2024a-2.fc39 updates 715 k tzdata-java noarch 2024a-2.fc39 updates 208 k xdg-utils noarch 1.1.3-15.fc39 fedora 77 k xml-common noarch 0.6.3-61.fc39 fedora 31 k xorg-x11-fonts-Type1 noarch 7.5-36.fc39 fedora 504 k xorg-x11-proto-devel noarch 2023.2-2.fc39 fedora 298 k xz-devel x86_64 5.4.4-1.fc39 fedora 66 k zlib-devel x86_64 1.2.13-4.fc39 fedora 45 k Transaction Summary ======================================================================================== Install 154 Packages Total size: 270 M Installed size: 871 M Downloading Packages: [SKIPPED] R-rpm-macros-1.2.1-7.fc39.noarch.rpm: Already downloaded [SKIPPED] abattis-cantarell-vf-fonts-0.301-10.fc39.noarch.rpm: Already downloaded [SKIPPED] avahi-libs-0.8-24.fc39.x86_64.rpm: Already downloaded [SKIPPED] brotli-1.1.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] brotli-devel-1.1.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] bzip2-devel-1.0.8-16.fc39.x86_64.rpm: Already downloaded [SKIPPED] cairo-1.18.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] cmake-filesystem-3.27.7-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] copy-jdk-configs-4.1-3.fc39.noarch.rpm: Already downloaded [SKIPPED] dbus-libs-1.14.10-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] default-fonts-core-sans-4.0-9.fc39.noarch.rpm: Already downloaded [SKIPPED] desktop-file-utils-0.26-9.fc39.x86_64.rpm: Already downloaded [SKIPPED] fonts-filesystem-2.0.5-12.fc39.noarch.rpm: Already downloaded [SKIPPED] freetype-2.13.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] freetype-devel-2.13.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] fribidi-1.0.13-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] gc-8.2.2-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] gettext-0.22-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] gettext-envsubst-0.22-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] gettext-libs-0.22-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] gettext-runtime-0.22-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] graphite2-1.3.14-12.fc39.x86_64.rpm: Already downloaded [SKIPPED] graphite2-devel-1.3.14-12.fc39.x86_64.rpm: Already downloaded [SKIPPED] guile22-2.2.7-9.fc39.x86_64.rpm: Already downloaded [SKIPPED] harfbuzz-8.2.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] harfbuzz-devel-8.2.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] harfbuzz-icu-8.2.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] javapackages-filesystem-6.1.0-10.fc39.noarch.rpm: Already downloaded [SKIPPED] jbigkit-libs-2.1-26.fc39.x86_64.rpm: Already downloaded [SKIPPED] libICE-1.0.10-11.fc39.x86_64.rpm: Already downloaded [SKIPPED] libSM-1.2.3-13.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXau-1.0.11-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXau-devel-1.0.11-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXcomposite-0.4.5-10.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXext-1.3.5-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXft-2.3.8-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXft-devel-2.3.8-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXi-1.8.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXmu-1.1.4-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXrender-0.9.11-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXrender-devel-0.9.11-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXt-1.2.1-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] libXtst-1.2.4-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libb2-0.98.1-9.fc39.x86_64.rpm: Already downloaded [SKIPPED] libdatrie-0.2.13-7.fc39.x86_64.rpm: Already downloaded [SKIPPED] libffi-devel-3.4.4-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] libfontenc-1.1.6-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libicu-73.2-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libicu-devel-73.2-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libjpeg-turbo-2.1.4-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] liblerc-4.0.0-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] libmpc-1.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libpng-1.6.37-15.fc39.x86_64.rpm: Already downloaded [SKIPPED] libpng-devel-1.6.37-15.fc39.x86_64.rpm: Already downloaded [SKIPPED] libselinux-devel-3.5-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] libsepol-devel-3.5-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libthai-0.1.29-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] libtiff-4.4.0-8.fc39.x86_64.rpm: Already downloaded [SKIPPED] libwebp-1.3.2-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libxcb-1.13.1-12.fc39.x86_64.rpm: Already downloaded [SKIPPED] libxcb-devel-1.13.1-12.fc39.x86_64.rpm: Already downloaded [SKIPPED] libxcrypt-devel-4.4.36-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libxml2-devel-2.10.4-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] lua-5.4.6-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] lua-posix-36.2.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] make-4.4.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] mkfontscale-1.2.2-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] mpdecimal-2.5.1-7.fc39.x86_64.rpm: Already downloaded [SKIPPED] nettle-3.9.1-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] openblas-0.3.21-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] openblas-openmp-0.3.21-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] openblas-openmp64-0.3.21-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] pango-1.51.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] pcre2-devel-10.42-1.fc39.2.x86_64.rpm: Already downloaded [SKIPPED] pcre2-utf16-10.42-1.fc39.2.x86_64.rpm: Already downloaded [SKIPPED] pcre2-utf32-10.42-1.fc39.2.x86_64.rpm: Already downloaded [SKIPPED] pixman-0.42.2-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] tcl-8.6.12-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] tcl-devel-8.6.12-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] tk-8.6.12-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] tk-devel-8.6.12-5.fc39.x86_64.rpm: Already downloaded [SKIPPED] tre-0.8.0-41.20140228gitc2f5d13.fc39.x86_64.rpm: Already downloaded [SKIPPED] tre-common-0.8.0-41.20140228gitc2f5d13.fc39.noarch.rpm: Already downloaded [SKIPPED] tre-devel-0.8.0-41.20140228gitc2f5d13.fc39.x86_64.rpm: Already downloaded [SKIPPED] ttmkfdir-3.0.9-69.fc39.x86_64.rpm: Already downloaded [SKIPPED] xdg-utils-1.1.3-15.fc39.noarch.rpm: Already downloaded [SKIPPED] xml-common-0.6.3-61.fc39.noarch.rpm: Already downloaded [SKIPPED] xorg-x11-fonts-Type1-7.5-36.fc39.noarch.rpm: Already downloaded [SKIPPED] xorg-x11-proto-devel-2023.2-2.fc39.noarch.rpm: Already downloaded [SKIPPED] xz-devel-5.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] zlib-devel-1.2.13-4.fc39.x86_64.rpm: Already downloaded [SKIPPED] R-core-4.3.3-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] R-core-devel-4.3.3-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] R-devel-4.3.3-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] R-java-4.3.3-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] R-java-devel-4.3.3-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] alsa-lib-1.2.12-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] annobin-docs-12.60-1.fc39.noarch.rpm: Already downloaded [SKIPPED] annobin-plugin-gcc-12.60-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] cpp-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] crypto-policies-scripts-20231204-1.git1e3a2e4.fc39.noarch.rpm: Already downloaded [SKIPPED] cups-libs-2.4.10-7.fc39.x86_64.rpm: Already downloaded [SKIPPED] emacs-filesystem-29.4-2.fc39.noarch.rpm: Already downloaded [SKIPPED] expat-2.6.3-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] flexiblas-3.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] flexiblas-devel-3.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] flexiblas-netlib-3.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] flexiblas-netlib64-3.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] flexiblas-openblas-openmp-3.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] flexiblas-openblas-openmp64-3.4.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] fontconfig-2.14.2-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] fontconfig-devel-2.14.2-6.fc39.x86_64.rpm: Already downloaded [SKIPPED] gcc-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] gcc-c++-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] gcc-gfortran-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] gcc-plugin-annobin-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] glib2-2.78.6-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] glib2-devel-2.78.6-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] glibc-devel-2.38-18.fc39.x86_64.rpm: Already downloaded [SKIPPED] glibc-headers-x86-2.38-18.fc39.noarch.rpm: Already downloaded [SKIPPED] gnutls-3.8.6-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] google-noto-fonts-common-20240101-1.fc39.noarch.rpm: Already downloaded [SKIPPED] google-noto-sans-vf-fonts-20240101-1.fc39.noarch.rpm: Already downloaded [SKIPPED] java-21-openjdk-21.0.4.0.7-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] java-21-openjdk-devel-21.0.4.0.7-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] java-21-openjdk-headless-21.0.4.0.7-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] kernel-headers-6.10.3-200.fc39.x86_64.rpm: Already downloaded [SKIPPED] libRmath-4.3.3-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libRmath-devel-4.3.3-2.fc39.x86_64.rpm: Already downloaded [SKIPPED] libX11-1.8.9-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libX11-common-1.8.9-1.fc39.noarch.rpm: Already downloaded [SKIPPED] libX11-devel-1.8.9-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libX11-xcb-1.8.9-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libblkid-devel-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libgfortran-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libmount-devel-2.39.4-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] libquadmath-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libquadmath-devel-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libstdc++-devel-13.3.1-3.fc39.x86_64.rpm: Already downloaded [SKIPPED] libtirpc-devel-1.3.5-0.fc39.x86_64.rpm: Already downloaded [SKIPPED] lksctp-tools-1.0.20-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] nspr-4.35.0-23.fc39.x86_64.rpm: Already downloaded [SKIPPED] nss-3.104.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] nss-softokn-3.104.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] nss-softokn-freebl-3.104.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] nss-sysinit-3.104.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] nss-util-3.104.0-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] python-pip-wheel-23.2.1-2.fc39.noarch.rpm: Already downloaded [SKIPPED] python3-3.12.6-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] python3-libs-3.12.6-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] python3-setuptools-67.7.2-8.fc39.noarch.rpm: Already downloaded [SKIPPED] sysprof-capture-devel-45.1-1.fc39.x86_64.rpm: Already downloaded [SKIPPED] tzdata-2024a-2.fc39.noarch.rpm: Already downloaded [SKIPPED] tzdata-java-2024a-2.fc39.noarch.rpm: Already downloaded Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: copy-jdk-configs-4.1-3.fc39.noarch 1/1 Running scriptlet: java-21-openjdk-headless-1:21.0.4.0.7-2.fc39.x86_64 1/1 Preparing : 1/1 Installing : zlib-devel-1.2.13-4.fc39.x86_64 1/154 Installing : nspr-4.35.0-23.fc39.x86_64 2/154 Installing : libgfortran-13.3.1-3.fc39.x86_64 3/154 Installing : nss-util-3.104.0-1.fc39.x86_64 4/154 Installing : libquadmath-13.3.1-3.fc39.x86_64 5/154 Installing : xorg-x11-proto-devel-2023.2-2.fc39.noarch 6/154 Installing : libpng-2:1.6.37-15.fc39.x86_64 7/154 Installing : libmpc-1.3.1-3.fc39.x86_64 8/154 Installing : tcl-1:8.6.12-5.fc39.x86_64 9/154 Installing : libicu-73.2-2.fc39.x86_64 10/154 Installing : fonts-filesystem-1:2.0.5-12.fc39.noarch 11/154 Installing : libicu-devel-73.2-2.fc39.x86_64 12/154 Installing : tcl-devel-1:8.6.12-5.fc39.x86_64 13/154 Installing : libRmath-4.3.3-2.fc39.x86_64 14/154 Installing : xz-devel-5.4.4-1.fc39.x86_64 15/154 Installing : openblas-0.3.21-6.fc39.x86_64 16/154 Installing : libjpeg-turbo-2.1.4-3.fc39.x86_64 17/154 Installing : libXau-1.0.11-3.fc39.x86_64 18/154 Installing : libxcb-1.13.1-12.fc39.x86_64 19/154 Installing : libICE-1.0.10-11.fc39.x86_64 20/154 Installing : graphite2-1.3.14-12.fc39.x86_64 21/154 Installing : gettext-libs-0.22-2.fc39.x86_64 22/154 Installing : bzip2-devel-1.0.8-16.fc39.x86_64 23/154 Installing : graphite2-devel-1.3.14-12.fc39.x86_64 24/154 Installing : libSM-1.2.3-13.fc39.x86_64 25/154 Installing : libXau-devel-1.0.11-3.fc39.x86_64 26/154 Installing : libxcb-devel-1.13.1-12.fc39.x86_64 27/154 Installing : openblas-openmp-0.3.21-6.fc39.x86_64 28/154 Installing : openblas-openmp64-0.3.21-6.fc39.x86_64 29/154 Installing : flexiblas-netlib64-3.4.4-1.fc39.x86_64 30/154 Installing : flexiblas-netlib-3.4.4-1.fc39.x86_64 31/154 Installing : flexiblas-openblas-openmp-3.4.4-1.fc39.x86_64 32/154 Installing : flexiblas-3.4.4-1.fc39.x86_64 33/154 Installing : flexiblas-openblas-openmp64-3.4.4-1.fc39.x86_64 34/154 Installing : flexiblas-devel-3.4.4-1.fc39.x86_64 35/154 Installing : libRmath-devel-4.3.3-2.fc39.x86_64 36/154 Installing : abattis-cantarell-vf-fonts-0.301-10.fc39.noarch 37/154 Installing : cpp-13.3.1-3.fc39.x86_64 38/154 Installing : libpng-devel-2:1.6.37-15.fc39.x86_64 39/154 Installing : nss-softokn-freebl-3.104.0-1.fc39.x86_64 40/154 Installing : nss-softokn-3.104.0-1.fc39.x86_64 41/154 Installing : tzdata-java-2024a-2.fc39.noarch 42/154 Installing : tzdata-2024a-2.fc39.noarch 43/154 Installing : sysprof-capture-devel-45.1-1.fc39.x86_64 44/154 Installing : python-pip-wheel-23.2.1-2.fc39.noarch 45/154 Installing : lksctp-tools-1.0.20-1.fc39.x86_64 46/154 Installing : libtirpc-devel-1.3.5-0.fc39.x86_64 47/154 Installing : libstdc++-devel-13.3.1-3.fc39.x86_64 48/154 Installing : libblkid-devel-2.39.4-1.fc39.x86_64 49/154 Installing : libX11-xcb-1.8.9-1.fc39.x86_64 50/154 Installing : libX11-common-1.8.9-1.fc39.noarch 51/154 Installing : libX11-1.8.9-1.fc39.x86_64 52/154 Installing : libXext-1.3.5-3.fc39.x86_64 53/154 Installing : libXrender-0.9.11-3.fc39.x86_64 54/154 Installing : libX11-devel-1.8.9-1.fc39.x86_64 55/154 Installing : libXi-1.8.1-2.fc39.x86_64 56/154 Installing : libXt-1.2.1-5.fc39.x86_64 57/154 Installing : libXmu-1.1.4-3.fc39.x86_64 58/154 Installing : libXtst-1.2.4-3.fc39.x86_64 59/154 Installing : libXrender-devel-0.9.11-3.fc39.x86_64 60/154 Installing : libXcomposite-0.4.5-10.fc39.x86_64 61/154 Installing : kernel-headers-6.10.3-200.fc39.x86_64 62/154 Installing : google-noto-fonts-common-20240101-1.fc39.noarch 63/154 Installing : google-noto-sans-vf-fonts-20240101-1.fc39.noarch 64/154 Installing : default-fonts-core-sans-4.0-9.fc39.noarch 65/154 Installing : glibc-headers-x86-2.38-18.fc39.noarch 66/154 Installing : glibc-devel-2.38-18.fc39.x86_64 67/154 Installing : libxcrypt-devel-4.4.36-2.fc39.x86_64 68/154 Installing : expat-2.6.3-1.fc39.x86_64 69/154 Installing : emacs-filesystem-1:29.4-2.fc39.noarch 70/154 Installing : annobin-docs-12.60-1.fc39.noarch 71/154 Installing : alsa-lib-1.2.12-1.fc39.x86_64 72/154 Running scriptlet: xml-common-0.6.3-61.fc39.noarch 73/154 Installing : xml-common-0.6.3-61.fc39.noarch 73/154 Installing : tre-common-0.8.0-41.20140228gitc2f5d13.fc39.noar 74/154 Installing : tre-0.8.0-41.20140228gitc2f5d13.fc39.x86_64 75/154 Installing : tre-devel-0.8.0-41.20140228gitc2f5d13.fc39.x86_6 76/154 Installing : pixman-0.42.2-2.fc39.x86_64 77/154 Installing : pcre2-utf32-10.42-1.fc39.2.x86_64 78/154 Installing : pcre2-utf16-10.42-1.fc39.2.x86_64 79/154 Installing : pcre2-devel-10.42-1.fc39.2.x86_64 80/154 Installing : nettle-3.9.1-2.fc39.x86_64 81/154 Installing : gnutls-3.8.6-1.fc39.x86_64 82/154 Installing : glib2-2.78.6-1.fc39.x86_64 83/154 Installing : cairo-1.18.0-1.fc39.x86_64 84/154 Installing : harfbuzz-8.2.1-2.fc39.x86_64 85/154 Installing : freetype-2.13.1-2.fc39.x86_64 86/154 Installing : fontconfig-2.14.2-6.fc39.x86_64 87/154 Running scriptlet: fontconfig-2.14.2-6.fc39.x86_64 87/154 Installing : libXft-2.3.8-3.fc39.x86_64 88/154 Running scriptlet: tk-1:8.6.12-5.fc39.x86_64 89/154 Installing : tk-1:8.6.12-5.fc39.x86_64 89/154 Installing : ttmkfdir-3.0.9-69.fc39.x86_64 90/154 Installing : harfbuzz-icu-8.2.1-2.fc39.x86_64 91/154 Installing : desktop-file-utils-0.26-9.fc39.x86_64 92/154 Installing : xdg-utils-1.1.3-15.fc39.noarch 93/154 Installing : mpdecimal-2.5.1-7.fc39.x86_64 94/154 Installing : lua-posix-36.2.1-3.fc39.x86_64 95/154 Installing : lua-5.4.6-3.fc39.x86_64 96/154 Installing : copy-jdk-configs-4.1-3.fc39.noarch 97/154 Installing : libwebp-1.3.2-2.fc39.x86_64 98/154 Installing : libsepol-devel-3.5-2.fc39.x86_64 99/154 Installing : libselinux-devel-3.5-5.fc39.x86_64 100/154 Installing : libmount-devel-2.39.4-1.fc39.x86_64 101/154 Installing : liblerc-4.0.0-4.fc39.x86_64 102/154 Installing : libfontenc-1.1.6-3.fc39.x86_64 103/154 Installing : mkfontscale-1.2.2-4.fc39.x86_64 104/154 Installing : xorg-x11-fonts-Type1-7.5-36.fc39.noarch 105/154 Running scriptlet: xorg-x11-fonts-Type1-7.5-36.fc39.noarch 105/154 Installing : libffi-devel-3.4.4-4.fc39.x86_64 106/154 Installing : libdatrie-0.2.13-7.fc39.x86_64 107/154 Installing : libthai-0.1.29-6.fc39.x86_64 108/154 Installing : libb2-0.98.1-9.fc39.x86_64 109/154 Installing : python3-3.12.6-1.fc39.x86_64 110/154 Installing : python3-libs-3.12.6-1.fc39.x86_64 111/154 Installing : crypto-policies-scripts-20231204-1.git1e3a2e4.fc 112/154 Installing : nss-sysinit-3.104.0-1.fc39.x86_64 113/154 Installing : nss-3.104.0-1.fc39.x86_64 114/154 Running scriptlet: nss-3.104.0-1.fc39.x86_64 114/154 Installing : python3-setuptools-67.7.2-8.fc39.noarch 115/154 Installing : glib2-devel-2.78.6-1.fc39.x86_64 116/154 Installing : jbigkit-libs-2.1-26.fc39.x86_64 117/154 Installing : libtiff-4.4.0-8.fc39.x86_64 118/154 Installing : javapackages-filesystem-6.1.0-10.fc39.noarch 119/154 Installing : gettext-envsubst-0.22-2.fc39.x86_64 120/154 Installing : gettext-runtime-0.22-2.fc39.x86_64 121/154 Installing : gettext-0.22-2.fc39.x86_64 122/154 Installing : gc-8.2.2-4.fc39.x86_64 123/154 Installing : guile22-2.2.7-9.fc39.x86_64 124/154 Installing : make-1:4.4.1-2.fc39.x86_64 125/154 Installing : gcc-13.3.1-3.fc39.x86_64 126/154 Running scriptlet: gcc-13.3.1-3.fc39.x86_64 126/154 Installing : gcc-c++-13.3.1-3.fc39.x86_64 127/154 Installing : libquadmath-devel-13.3.1-3.fc39.x86_64 128/154 Installing : gcc-gfortran-13.3.1-3.fc39.x86_64 129/154 Installing : fribidi-1.0.13-2.fc39.x86_64 130/154 Installing : pango-1.51.0-1.fc39.x86_64 131/154 Installing : R-core-4.3.3-2.fc39.x86_64 132/154 Installing : R-rpm-macros-1.2.1-7.fc39.noarch 133/154 Installing : dbus-libs-1:1.14.10-1.fc39.x86_64 134/154 Installing : avahi-libs-0.8-24.fc39.x86_64 135/154 Installing : cups-libs-1:2.4.10-7.fc39.x86_64 136/154 Installing : java-21-openjdk-headless-1:21.0.4.0.7-2.fc39.x86 137/154 Running scriptlet: java-21-openjdk-headless-1:21.0.4.0.7-2.fc39.x86 137/154 Installing : R-java-4.3.3-2.fc39.x86_64 138/154 Installing : java-21-openjdk-1:21.0.4.0.7-2.fc39.x86_64 139/154 Running scriptlet: java-21-openjdk-1:21.0.4.0.7-2.fc39.x86_64 139/154 Installing : java-21-openjdk-devel-1:21.0.4.0.7-2.fc39.x86_64 140/154 Running scriptlet: java-21-openjdk-devel-1:21.0.4.0.7-2.fc39.x86_64 140/154 Installing : cmake-filesystem-3.27.7-1.fc39.x86_64 141/154 Installing : libxml2-devel-2.10.4-3.fc39.x86_64 142/154 Installing : brotli-1.1.0-1.fc39.x86_64 143/154 Installing : brotli-devel-1.1.0-1.fc39.x86_64 144/154 Installing : freetype-devel-2.13.1-2.fc39.x86_64 145/154 Installing : harfbuzz-devel-8.2.1-2.fc39.x86_64 146/154 Installing : fontconfig-devel-2.14.2-6.fc39.x86_64 147/154 Installing : libXft-devel-2.3.8-3.fc39.x86_64 148/154 Installing : tk-devel-1:8.6.12-5.fc39.x86_64 149/154 Installing : R-core-devel-4.3.3-2.fc39.x86_64 150/154 Installing : R-java-devel-4.3.3-2.fc39.x86_64 151/154 Installing : R-devel-4.3.3-2.fc39.x86_64 152/154 Installing : annobin-plugin-gcc-12.60-1.fc39.x86_64 153/154 Running scriptlet: annobin-plugin-gcc-12.60-1.fc39.x86_64 153/154 Installing : gcc-plugin-annobin-13.3.1-3.fc39.x86_64 154/154 Running scriptlet: gcc-plugin-annobin-13.3.1-3.fc39.x86_64 154/154 Running scriptlet: fontconfig-2.14.2-6.fc39.x86_64 154/154 Running scriptlet: copy-jdk-configs-4.1-3.fc39.noarch 154/154 Running scriptlet: crypto-policies-scripts-20231204-1.git1e3a2e4.fc 154/154 Running scriptlet: nss-3.104.0-1.fc39.x86_64 154/154 Running scriptlet: java-21-openjdk-headless-1:21.0.4.0.7-2.fc39.x86 154/154 Running scriptlet: java-21-openjdk-1:21.0.4.0.7-2.fc39.x86_64 154/154 Running scriptlet: java-21-openjdk-devel-1:21.0.4.0.7-2.fc39.x86_64 154/154 Running scriptlet: gcc-plugin-annobin-13.3.1-3.fc39.x86_64 154/154 Verifying : R-rpm-macros-1.2.1-7.fc39.noarch 1/154 Verifying : abattis-cantarell-vf-fonts-0.301-10.fc39.noarch 2/154 Verifying : avahi-libs-0.8-24.fc39.x86_64 3/154 Verifying : brotli-1.1.0-1.fc39.x86_64 4/154 Verifying : brotli-devel-1.1.0-1.fc39.x86_64 5/154 Verifying : bzip2-devel-1.0.8-16.fc39.x86_64 6/154 Verifying : cairo-1.18.0-1.fc39.x86_64 7/154 Verifying : cmake-filesystem-3.27.7-1.fc39.x86_64 8/154 Verifying : copy-jdk-configs-4.1-3.fc39.noarch 9/154 Verifying : dbus-libs-1:1.14.10-1.fc39.x86_64 10/154 Verifying : default-fonts-core-sans-4.0-9.fc39.noarch 11/154 Verifying : desktop-file-utils-0.26-9.fc39.x86_64 12/154 Verifying : fonts-filesystem-1:2.0.5-12.fc39.noarch 13/154 Verifying : freetype-2.13.1-2.fc39.x86_64 14/154 Verifying : freetype-devel-2.13.1-2.fc39.x86_64 15/154 Verifying : fribidi-1.0.13-2.fc39.x86_64 16/154 Verifying : gc-8.2.2-4.fc39.x86_64 17/154 Verifying : gettext-0.22-2.fc39.x86_64 18/154 Verifying : gettext-envsubst-0.22-2.fc39.x86_64 19/154 Verifying : gettext-libs-0.22-2.fc39.x86_64 20/154 Verifying : gettext-runtime-0.22-2.fc39.x86_64 21/154 Verifying : graphite2-1.3.14-12.fc39.x86_64 22/154 Verifying : graphite2-devel-1.3.14-12.fc39.x86_64 23/154 Verifying : guile22-2.2.7-9.fc39.x86_64 24/154 Verifying : harfbuzz-8.2.1-2.fc39.x86_64 25/154 Verifying : harfbuzz-devel-8.2.1-2.fc39.x86_64 26/154 Verifying : harfbuzz-icu-8.2.1-2.fc39.x86_64 27/154 Verifying : javapackages-filesystem-6.1.0-10.fc39.noarch 28/154 Verifying : jbigkit-libs-2.1-26.fc39.x86_64 29/154 Verifying : libICE-1.0.10-11.fc39.x86_64 30/154 Verifying : libSM-1.2.3-13.fc39.x86_64 31/154 Verifying : libXau-1.0.11-3.fc39.x86_64 32/154 Verifying : libXau-devel-1.0.11-3.fc39.x86_64 33/154 Verifying : libXcomposite-0.4.5-10.fc39.x86_64 34/154 Verifying : libXext-1.3.5-3.fc39.x86_64 35/154 Verifying : libXft-2.3.8-3.fc39.x86_64 36/154 Verifying : libXft-devel-2.3.8-3.fc39.x86_64 37/154 Verifying : libXi-1.8.1-2.fc39.x86_64 38/154 Verifying : libXmu-1.1.4-3.fc39.x86_64 39/154 Verifying : libXrender-0.9.11-3.fc39.x86_64 40/154 Verifying : libXrender-devel-0.9.11-3.fc39.x86_64 41/154 Verifying : libXt-1.2.1-5.fc39.x86_64 42/154 Verifying : libXtst-1.2.4-3.fc39.x86_64 43/154 Verifying : libb2-0.98.1-9.fc39.x86_64 44/154 Verifying : libdatrie-0.2.13-7.fc39.x86_64 45/154 Verifying : libffi-devel-3.4.4-4.fc39.x86_64 46/154 Verifying : libfontenc-1.1.6-3.fc39.x86_64 47/154 Verifying : libicu-73.2-2.fc39.x86_64 48/154 Verifying : libicu-devel-73.2-2.fc39.x86_64 49/154 Verifying : libjpeg-turbo-2.1.4-3.fc39.x86_64 50/154 Verifying : liblerc-4.0.0-4.fc39.x86_64 51/154 Verifying : libmpc-1.3.1-3.fc39.x86_64 52/154 Verifying : libpng-2:1.6.37-15.fc39.x86_64 53/154 Verifying : libpng-devel-2:1.6.37-15.fc39.x86_64 54/154 Verifying : libselinux-devel-3.5-5.fc39.x86_64 55/154 Verifying : libsepol-devel-3.5-2.fc39.x86_64 56/154 Verifying : libthai-0.1.29-6.fc39.x86_64 57/154 Verifying : libtiff-4.4.0-8.fc39.x86_64 58/154 Verifying : libwebp-1.3.2-2.fc39.x86_64 59/154 Verifying : libxcb-1.13.1-12.fc39.x86_64 60/154 Verifying : libxcb-devel-1.13.1-12.fc39.x86_64 61/154 Verifying : libxcrypt-devel-4.4.36-2.fc39.x86_64 62/154 Verifying : libxml2-devel-2.10.4-3.fc39.x86_64 63/154 Verifying : lua-5.4.6-3.fc39.x86_64 64/154 Verifying : lua-posix-36.2.1-3.fc39.x86_64 65/154 Verifying : make-1:4.4.1-2.fc39.x86_64 66/154 Verifying : mkfontscale-1.2.2-4.fc39.x86_64 67/154 Verifying : mpdecimal-2.5.1-7.fc39.x86_64 68/154 Verifying : nettle-3.9.1-2.fc39.x86_64 69/154 Verifying : openblas-0.3.21-6.fc39.x86_64 70/154 Verifying : openblas-openmp-0.3.21-6.fc39.x86_64 71/154 Verifying : openblas-openmp64-0.3.21-6.fc39.x86_64 72/154 Verifying : pango-1.51.0-1.fc39.x86_64 73/154 Verifying : pcre2-devel-10.42-1.fc39.2.x86_64 74/154 Verifying : pcre2-utf16-10.42-1.fc39.2.x86_64 75/154 Verifying : pcre2-utf32-10.42-1.fc39.2.x86_64 76/154 Verifying : pixman-0.42.2-2.fc39.x86_64 77/154 Verifying : tcl-1:8.6.12-5.fc39.x86_64 78/154 Verifying : tcl-devel-1:8.6.12-5.fc39.x86_64 79/154 Verifying : tk-1:8.6.12-5.fc39.x86_64 80/154 Verifying : tk-devel-1:8.6.12-5.fc39.x86_64 81/154 Verifying : tre-0.8.0-41.20140228gitc2f5d13.fc39.x86_64 82/154 Verifying : tre-common-0.8.0-41.20140228gitc2f5d13.fc39.noar 83/154 Verifying : tre-devel-0.8.0-41.20140228gitc2f5d13.fc39.x86_6 84/154 Verifying : ttmkfdir-3.0.9-69.fc39.x86_64 85/154 Verifying : xdg-utils-1.1.3-15.fc39.noarch 86/154 Verifying : xml-common-0.6.3-61.fc39.noarch 87/154 Verifying : xorg-x11-fonts-Type1-7.5-36.fc39.noarch 88/154 Verifying : xorg-x11-proto-devel-2023.2-2.fc39.noarch 89/154 Verifying : xz-devel-5.4.4-1.fc39.x86_64 90/154 Verifying : zlib-devel-1.2.13-4.fc39.x86_64 91/154 Verifying : R-core-4.3.3-2.fc39.x86_64 92/154 Verifying : R-core-devel-4.3.3-2.fc39.x86_64 93/154 Verifying : R-devel-4.3.3-2.fc39.x86_64 94/154 Verifying : R-java-4.3.3-2.fc39.x86_64 95/154 Verifying : R-java-devel-4.3.3-2.fc39.x86_64 96/154 Verifying : alsa-lib-1.2.12-1.fc39.x86_64 97/154 Verifying : annobin-docs-12.60-1.fc39.noarch 98/154 Verifying : annobin-plugin-gcc-12.60-1.fc39.x86_64 99/154 Verifying : cpp-13.3.1-3.fc39.x86_64 100/154 Verifying : crypto-policies-scripts-20231204-1.git1e3a2e4.fc 101/154 Verifying : cups-libs-1:2.4.10-7.fc39.x86_64 102/154 Verifying : emacs-filesystem-1:29.4-2.fc39.noarch 103/154 Verifying : expat-2.6.3-1.fc39.x86_64 104/154 Verifying : flexiblas-3.4.4-1.fc39.x86_64 105/154 Verifying : flexiblas-devel-3.4.4-1.fc39.x86_64 106/154 Verifying : flexiblas-netlib-3.4.4-1.fc39.x86_64 107/154 Verifying : flexiblas-netlib64-3.4.4-1.fc39.x86_64 108/154 Verifying : flexiblas-openblas-openmp-3.4.4-1.fc39.x86_64 109/154 Verifying : flexiblas-openblas-openmp64-3.4.4-1.fc39.x86_64 110/154 Verifying : fontconfig-2.14.2-6.fc39.x86_64 111/154 Verifying : fontconfig-devel-2.14.2-6.fc39.x86_64 112/154 Verifying : gcc-13.3.1-3.fc39.x86_64 113/154 Verifying : gcc-c++-13.3.1-3.fc39.x86_64 114/154 Verifying : gcc-gfortran-13.3.1-3.fc39.x86_64 115/154 Verifying : gcc-plugin-annobin-13.3.1-3.fc39.x86_64 116/154 Verifying : glib2-2.78.6-1.fc39.x86_64 117/154 Verifying : glib2-devel-2.78.6-1.fc39.x86_64 118/154 Verifying : glibc-devel-2.38-18.fc39.x86_64 119/154 Verifying : glibc-headers-x86-2.38-18.fc39.noarch 120/154 Verifying : gnutls-3.8.6-1.fc39.x86_64 121/154 Verifying : google-noto-fonts-common-20240101-1.fc39.noarch 122/154 Verifying : google-noto-sans-vf-fonts-20240101-1.fc39.noarch 123/154 Verifying : java-21-openjdk-1:21.0.4.0.7-2.fc39.x86_64 124/154 Verifying : java-21-openjdk-devel-1:21.0.4.0.7-2.fc39.x86_64 125/154 Verifying : java-21-openjdk-headless-1:21.0.4.0.7-2.fc39.x86 126/154 Verifying : kernel-headers-6.10.3-200.fc39.x86_64 127/154 Verifying : libRmath-4.3.3-2.fc39.x86_64 128/154 Verifying : libRmath-devel-4.3.3-2.fc39.x86_64 129/154 Verifying : libX11-1.8.9-1.fc39.x86_64 130/154 Verifying : libX11-common-1.8.9-1.fc39.noarch 131/154 Verifying : libX11-devel-1.8.9-1.fc39.x86_64 132/154 Verifying : libX11-xcb-1.8.9-1.fc39.x86_64 133/154 Verifying : libblkid-devel-2.39.4-1.fc39.x86_64 134/154 Verifying : libgfortran-13.3.1-3.fc39.x86_64 135/154 Verifying : libmount-devel-2.39.4-1.fc39.x86_64 136/154 Verifying : libquadmath-13.3.1-3.fc39.x86_64 137/154 Verifying : libquadmath-devel-13.3.1-3.fc39.x86_64 138/154 Verifying : libstdc++-devel-13.3.1-3.fc39.x86_64 139/154 Verifying : libtirpc-devel-1.3.5-0.fc39.x86_64 140/154 Verifying : lksctp-tools-1.0.20-1.fc39.x86_64 141/154 Verifying : nspr-4.35.0-23.fc39.x86_64 142/154 Verifying : nss-3.104.0-1.fc39.x86_64 143/154 Verifying : nss-softokn-3.104.0-1.fc39.x86_64 144/154 Verifying : nss-softokn-freebl-3.104.0-1.fc39.x86_64 145/154 Verifying : nss-sysinit-3.104.0-1.fc39.x86_64 146/154 Verifying : nss-util-3.104.0-1.fc39.x86_64 147/154 Verifying : python-pip-wheel-23.2.1-2.fc39.noarch 148/154 Verifying : python3-3.12.6-1.fc39.x86_64 149/154 Verifying : python3-libs-3.12.6-1.fc39.x86_64 150/154 Verifying : python3-setuptools-67.7.2-8.fc39.noarch 151/154 Verifying : sysprof-capture-devel-45.1-1.fc39.x86_64 152/154 Verifying : tzdata-2024a-2.fc39.noarch 153/154 Verifying : tzdata-java-2024a-2.fc39.noarch 154/154 Installed products updated. Installed: R-core-4.3.3-2.fc39.x86_64 R-core-devel-4.3.3-2.fc39.x86_64 R-devel-4.3.3-2.fc39.x86_64 R-java-4.3.3-2.fc39.x86_64 R-java-devel-4.3.3-2.fc39.x86_64 R-rpm-macros-1.2.1-7.fc39.noarch abattis-cantarell-vf-fonts-0.301-10.fc39.noarch alsa-lib-1.2.12-1.fc39.x86_64 annobin-docs-12.60-1.fc39.noarch annobin-plugin-gcc-12.60-1.fc39.x86_64 avahi-libs-0.8-24.fc39.x86_64 brotli-1.1.0-1.fc39.x86_64 brotli-devel-1.1.0-1.fc39.x86_64 bzip2-devel-1.0.8-16.fc39.x86_64 cairo-1.18.0-1.fc39.x86_64 cmake-filesystem-3.27.7-1.fc39.x86_64 copy-jdk-configs-4.1-3.fc39.noarch cpp-13.3.1-3.fc39.x86_64 crypto-policies-scripts-20231204-1.git1e3a2e4.fc39.noarch cups-libs-1:2.4.10-7.fc39.x86_64 dbus-libs-1:1.14.10-1.fc39.x86_64 default-fonts-core-sans-4.0-9.fc39.noarch desktop-file-utils-0.26-9.fc39.x86_64 emacs-filesystem-1:29.4-2.fc39.noarch expat-2.6.3-1.fc39.x86_64 flexiblas-3.4.4-1.fc39.x86_64 flexiblas-devel-3.4.4-1.fc39.x86_64 flexiblas-netlib-3.4.4-1.fc39.x86_64 flexiblas-netlib64-3.4.4-1.fc39.x86_64 flexiblas-openblas-openmp-3.4.4-1.fc39.x86_64 flexiblas-openblas-openmp64-3.4.4-1.fc39.x86_64 fontconfig-2.14.2-6.fc39.x86_64 fontconfig-devel-2.14.2-6.fc39.x86_64 fonts-filesystem-1:2.0.5-12.fc39.noarch freetype-2.13.1-2.fc39.x86_64 freetype-devel-2.13.1-2.fc39.x86_64 fribidi-1.0.13-2.fc39.x86_64 gc-8.2.2-4.fc39.x86_64 gcc-13.3.1-3.fc39.x86_64 gcc-c++-13.3.1-3.fc39.x86_64 gcc-gfortran-13.3.1-3.fc39.x86_64 gcc-plugin-annobin-13.3.1-3.fc39.x86_64 gettext-0.22-2.fc39.x86_64 gettext-envsubst-0.22-2.fc39.x86_64 gettext-libs-0.22-2.fc39.x86_64 gettext-runtime-0.22-2.fc39.x86_64 glib2-2.78.6-1.fc39.x86_64 glib2-devel-2.78.6-1.fc39.x86_64 glibc-devel-2.38-18.fc39.x86_64 glibc-headers-x86-2.38-18.fc39.noarch gnutls-3.8.6-1.fc39.x86_64 google-noto-fonts-common-20240101-1.fc39.noarch google-noto-sans-vf-fonts-20240101-1.fc39.noarch graphite2-1.3.14-12.fc39.x86_64 graphite2-devel-1.3.14-12.fc39.x86_64 guile22-2.2.7-9.fc39.x86_64 harfbuzz-8.2.1-2.fc39.x86_64 harfbuzz-devel-8.2.1-2.fc39.x86_64 harfbuzz-icu-8.2.1-2.fc39.x86_64 java-21-openjdk-1:21.0.4.0.7-2.fc39.x86_64 java-21-openjdk-devel-1:21.0.4.0.7-2.fc39.x86_64 java-21-openjdk-headless-1:21.0.4.0.7-2.fc39.x86_64 javapackages-filesystem-6.1.0-10.fc39.noarch jbigkit-libs-2.1-26.fc39.x86_64 kernel-headers-6.10.3-200.fc39.x86_64 libICE-1.0.10-11.fc39.x86_64 libRmath-4.3.3-2.fc39.x86_64 libRmath-devel-4.3.3-2.fc39.x86_64 libSM-1.2.3-13.fc39.x86_64 libX11-1.8.9-1.fc39.x86_64 libX11-common-1.8.9-1.fc39.noarch libX11-devel-1.8.9-1.fc39.x86_64 libX11-xcb-1.8.9-1.fc39.x86_64 libXau-1.0.11-3.fc39.x86_64 libXau-devel-1.0.11-3.fc39.x86_64 libXcomposite-0.4.5-10.fc39.x86_64 libXext-1.3.5-3.fc39.x86_64 libXft-2.3.8-3.fc39.x86_64 libXft-devel-2.3.8-3.fc39.x86_64 libXi-1.8.1-2.fc39.x86_64 libXmu-1.1.4-3.fc39.x86_64 libXrender-0.9.11-3.fc39.x86_64 libXrender-devel-0.9.11-3.fc39.x86_64 libXt-1.2.1-5.fc39.x86_64 libXtst-1.2.4-3.fc39.x86_64 libb2-0.98.1-9.fc39.x86_64 libblkid-devel-2.39.4-1.fc39.x86_64 libdatrie-0.2.13-7.fc39.x86_64 libffi-devel-3.4.4-4.fc39.x86_64 libfontenc-1.1.6-3.fc39.x86_64 libgfortran-13.3.1-3.fc39.x86_64 libicu-73.2-2.fc39.x86_64 libicu-devel-73.2-2.fc39.x86_64 libjpeg-turbo-2.1.4-3.fc39.x86_64 liblerc-4.0.0-4.fc39.x86_64 libmount-devel-2.39.4-1.fc39.x86_64 libmpc-1.3.1-3.fc39.x86_64 libpng-2:1.6.37-15.fc39.x86_64 libpng-devel-2:1.6.37-15.fc39.x86_64 libquadmath-13.3.1-3.fc39.x86_64 libquadmath-devel-13.3.1-3.fc39.x86_64 libselinux-devel-3.5-5.fc39.x86_64 libsepol-devel-3.5-2.fc39.x86_64 libstdc++-devel-13.3.1-3.fc39.x86_64 libthai-0.1.29-6.fc39.x86_64 libtiff-4.4.0-8.fc39.x86_64 libtirpc-devel-1.3.5-0.fc39.x86_64 libwebp-1.3.2-2.fc39.x86_64 libxcb-1.13.1-12.fc39.x86_64 libxcb-devel-1.13.1-12.fc39.x86_64 libxcrypt-devel-4.4.36-2.fc39.x86_64 libxml2-devel-2.10.4-3.fc39.x86_64 lksctp-tools-1.0.20-1.fc39.x86_64 lua-5.4.6-3.fc39.x86_64 lua-posix-36.2.1-3.fc39.x86_64 make-1:4.4.1-2.fc39.x86_64 mkfontscale-1.2.2-4.fc39.x86_64 mpdecimal-2.5.1-7.fc39.x86_64 nettle-3.9.1-2.fc39.x86_64 nspr-4.35.0-23.fc39.x86_64 nss-3.104.0-1.fc39.x86_64 nss-softokn-3.104.0-1.fc39.x86_64 nss-softokn-freebl-3.104.0-1.fc39.x86_64 nss-sysinit-3.104.0-1.fc39.x86_64 nss-util-3.104.0-1.fc39.x86_64 openblas-0.3.21-6.fc39.x86_64 openblas-openmp-0.3.21-6.fc39.x86_64 openblas-openmp64-0.3.21-6.fc39.x86_64 pango-1.51.0-1.fc39.x86_64 pcre2-devel-10.42-1.fc39.2.x86_64 pcre2-utf16-10.42-1.fc39.2.x86_64 pcre2-utf32-10.42-1.fc39.2.x86_64 pixman-0.42.2-2.fc39.x86_64 python-pip-wheel-23.2.1-2.fc39.noarch python3-3.12.6-1.fc39.x86_64 python3-libs-3.12.6-1.fc39.x86_64 python3-setuptools-67.7.2-8.fc39.noarch sysprof-capture-devel-45.1-1.fc39.x86_64 tcl-1:8.6.12-5.fc39.x86_64 tcl-devel-1:8.6.12-5.fc39.x86_64 tk-1:8.6.12-5.fc39.x86_64 tk-devel-1:8.6.12-5.fc39.x86_64 tre-0.8.0-41.20140228gitc2f5d13.fc39.x86_64 tre-common-0.8.0-41.20140228gitc2f5d13.fc39.noarch tre-devel-0.8.0-41.20140228gitc2f5d13.fc39.x86_64 ttmkfdir-3.0.9-69.fc39.x86_64 tzdata-2024a-2.fc39.noarch tzdata-java-2024a-2.fc39.noarch xdg-utils-1.1.3-15.fc39.noarch xml-common-0.6.3-61.fc39.noarch xorg-x11-fonts-Type1-7.5-36.fc39.noarch xorg-x11-proto-devel-2023.2-2.fc39.noarch xz-devel-5.4.4-1.fc39.x86_64 zlib-devel-1.2.13-4.fc39.x86_64 Complete! Finish: build setup for R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm Start: rpmbuild R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm warning: source_date_epoch_from_changelog set but %changelog is missing Building target platforms: x86_64 Building for target x86_64 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.Yk4WI9 + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf seqminer + /usr/bin/mkdir -p seqminer + cd seqminer + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/seqminer_9.7.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + rm -rf /builddir/build/BUILD/seqminer-SPECPARTS + /usr/bin/mkdir -p /builddir/build/BUILD/seqminer-SPECPARTS + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + find -type f -executable -exec grep -Iq . '{}' ';' -exec sed -i -e '$a\' '{}' ';' + '[' -d seqminer/src ']' + find seqminer/src -type f -exec sed -i s@/usr/bin/strip@/usr/bin/true@g '{}' ';' + '[' -d seqminer/src ']' + find seqminer/src/Makevars.in seqminer/src/Makevars.win -type f -exec sed -i s@-g0@@g '{}' ';' + find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' '{}' ';' + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.9WW1oZ + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd seqminer + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.UyeUe5 + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 ++ dirname /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd seqminer + mkdir -p /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64/usr/local/lib/R/library + /usr/bin/R CMD INSTALL -l /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64/usr/local/lib/R/library seqminer * installing *source* package ‘seqminer’ ... ** package ‘seqminer’ successfully unpacked and MD5 sums checked ** using staged installation configure: CC = gcc configure: CFLAGS = -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer configure: CXX = g++ -std=gnu++11 configure: CXXFLAGS = -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++ -std=gnu++11 accepts -g... yes checking how to run the C++ preprocessor... g++ -std=gnu++11 -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for BZ2_bzDecompressInit in -lbz2... yes checking bzlib.h usability... yes checking bzlib.h presence... yes checking for bzlib.h... yes configure: Will use system-wide bzip2 library checking for ZSTD_compress in -lzstd... no configure: Will build zstd library from the package checking for sqlite3_open in -lsqlite3... no configure: Will build sqlite library from the package checking for regcomp in -lc... yes checking regex.h usability... yes checking regex.h presence... yes checking for regex.h... yes checking for working REG_STARTEND... yes configure: creating ./config.status config.status: creating src/Makevars config.status: creating src/config.h ** libs using C compiler: ‘gcc (GCC) 13.3.1 20240913 (Red Hat 13.3.1-3)’ using C++ compiler: ‘g++ (GCC) 13.3.1 20240913 (Red Hat 13.3.1-3)’ using C++17 do not have SQLite have bzip2 g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c BCFReader.cpp -o BCFReader.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c BGenFile.cpp -o BGenFile.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c BGenIndex.cpp -o BGenIndex.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c BGenVariant.cpp -o BGenVariant.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c Exception.cpp -o Exception.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c FileIO.cpp -o FileIO.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c GeneLoader.cpp -o GeneLoader.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c MmapFile.cpp -o MmapFile.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c PatternMatch.cpp -o PatternMatch.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c PeopleSet.cpp -o PeopleSet.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c PlinkInputFile.cpp -o PlinkInputFile.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c PlinkOutputFile.cpp -o PlinkOutputFile.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c Profiler.cpp -o Profiler.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c R_CPP_interface.cpp -o R_CPP_interface.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c RangeList.cpp -o RangeList.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c Rannotation.cpp -o Rannotation.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c SimpleMatrix.cpp -o SimpleMatrix.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c SingleChromosomeBCFIndex.cpp -o SingleChromosomeBCFIndex.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c SingleChromosomeVCFIndex.cpp -o SingleChromosomeVCFIndex.o SingleChromosomeVCFIndex.cpp: In member function ‘int SingleChromosomeVCFIndex::createIndex()’: SingleChromosomeVCFIndex.cpp:69:15: warning: unused variable ‘fn’ [-Wunused-variable] 69 | const char* fn = vcfFile_.c_str(); | ^~ SingleChromosomeVCFIndex.cpp: In member function ‘int SingleChromosomeVCFIndex::mapIndex()’: SingleChromosomeVCFIndex.cpp:201:15: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int64_t’ {aka ‘long int’} [-Wsign-compare] 201 | if (Nrecord != d[1]) { | ~~~~~~~~^~~~~~~ g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c TypeConversion.cpp -o TypeConversion.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c Utils.cpp -o Utils.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c VCFHeader.cpp -o VCFHeader.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c VCFIndividual.cpp -o VCFIndividual.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c VCFInfo.cpp -o VCFInfo.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c VCFInputFile.cpp -o VCFInputFile.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c VCFUtil.cpp -o VCFUtil.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c bcf.c -o bcf.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c bcf_index.c -o bcf_index.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c bcfutils.c -o bcfutils.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c bedidx.c -o bedidx.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c bgen2genoLoader.cpp -o bgen2genoLoader.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c bgzf.c -o bgzf.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c knetfile.c -o knetfile.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c kstring.c -o kstring.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c plink2genoLoader.cpp -o plink2genoLoader.o plink2genoLoader.cpp: In function ‘readBedToMatrixByIndex(std::__cxx11::basic_string, std::allocator > const&, int, int, std::vector > const&, std::vector > const&, SEXPREC*)’: plink2genoLoader.cpp:126:3: warning: ‘snpMajorMode’ may be used uninitialized [-Wmaybe-uninitialized] 126 | if (snpMajorMode) { | ^~ plink2genoLoader.cpp:78:8: note: ‘snpMajorMode’ was declared here 78 | bool snpMajorMode; | ^~~~~~~~~~~~ g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c rvMetaLoader.cpp -o rvMetaLoader.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c scbcf2genoLoader.cpp -o scbcf2genoLoader.o scbcf2genoLoader.cpp: In function ‘int parseBCFVariant(const BCFHeader&, uint32_t, uint32_t, std::vector, std::vector*, std::vector >*)’: scbcf2genoLoader.cpp:287:10: warning: unused variable ‘format_type’ [-Wunused-variable] 287 | int8_t format_type = *pIndv; | ^~~~~~~~~~~ g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c scvcf2genoLoader.cpp -o scvcf2genoLoader.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c seqForStat.c -o seqForStat.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c seqminer.c -o seqminer.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c seqminer_init.c -o seqminer_init.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c tabixLoader.cpp -o tabixLoader.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c tabix_index.c -o tabix_index.o tabix_index.c:19:14: warning: ‘currentTime’ defined but not used [-Wunused-function] 19 | static char* currentTime(void) { | ^~~~~~~~~~~ gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c vcf.c -o vcf.o g++ -std=gnu++17 -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c vcf2genoLoader.cpp -o vcf2genoLoader.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/common/debug.c -o zstd/lib/common/debug.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/common/entropy_common.c -o zstd/lib/common/entropy_common.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/common/error_private.c -o zstd/lib/common/error_private.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/common/fse_decompress.c -o zstd/lib/common/fse_decompress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/common/pool.c -o zstd/lib/common/pool.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/common/threading.c -o zstd/lib/common/threading.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/common/xxhash.c -o zstd/lib/common/xxhash.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/common/zstd_common.c -o zstd/lib/common/zstd_common.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/fse_compress.c -o zstd/lib/compress/fse_compress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/hist.c -o zstd/lib/compress/hist.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/huf_compress.c -o zstd/lib/compress/huf_compress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/zstd_compress.c -o zstd/lib/compress/zstd_compress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/zstd_double_fast.c -o zstd/lib/compress/zstd_double_fast.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/zstd_fast.c -o zstd/lib/compress/zstd_fast.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/zstd_lazy.c -o zstd/lib/compress/zstd_lazy.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/zstd_ldm.c -o zstd/lib/compress/zstd_ldm.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/zstd_opt.c -o zstd/lib/compress/zstd_opt.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/compress/zstdmt_compress.c -o zstd/lib/compress/zstdmt_compress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/decompress/huf_decompress.c -o zstd/lib/decompress/huf_decompress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/decompress/zstd_decompress.c -o zstd/lib/decompress/zstd_decompress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/deprecated/zbuff_common.c -o zstd/lib/deprecated/zbuff_common.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/deprecated/zbuff_compress.c -o zstd/lib/deprecated/zbuff_compress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/deprecated/zbuff_decompress.c -o zstd/lib/deprecated/zbuff_decompress.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/dictBuilder/cover.c -o zstd/lib/dictBuilder/cover.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/dictBuilder/divsufsort.c -o zstd/lib/dictBuilder/divsufsort.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/dictBuilder/fastcover.c -o zstd/lib/dictBuilder/fastcover.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/dictBuilder/zdict.c -o zstd/lib/dictBuilder/zdict.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/legacy/zstd_v05.c -o zstd/lib/legacy/zstd_v05.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/legacy/zstd_v06.c -o zstd/lib/legacy/zstd_v06.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c zstd/lib/legacy/zstd_v07.c -o zstd/lib/legacy/zstd_v07.o gcc -I"/usr/include/R" -DNDEBUG -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I. -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -Izstd/lib -Izstd/lib/common -DXXH_NAMESPACE=ZSTD_ -Izstd/lib/legacy -DZSTD_LEGACY_SUPPORT=5 -DR_NO_REMAP -I/usr/local/include -D_USE_KNETFILE -I. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -c sqlite/sqlite3.c -o sqlite/sqlite3.o g++ -std=gnu++17 -shared -L/usr/lib64/R/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o seqminer.so BCFReader.o BGenFile.o BGenIndex.o BGenVariant.o Exception.o FileIO.o GeneLoader.o MmapFile.o PatternMatch.o PeopleSet.o PlinkInputFile.o PlinkOutputFile.o Profiler.o R_CPP_interface.o RangeList.o Rannotation.o SimpleMatrix.o SingleChromosomeBCFIndex.o SingleChromosomeVCFIndex.o TypeConversion.o Utils.o VCFHeader.o VCFIndividual.o VCFInfo.o VCFInputFile.o VCFUtil.o bcf.o bcf_index.o bcfutils.o bedidx.o bgen2genoLoader.o bgzf.o knetfile.o kstring.o plink2genoLoader.o rvMetaLoader.o scbcf2genoLoader.o scvcf2genoLoader.o seqForStat.o seqminer.o seqminer_init.o tabixLoader.o tabix_index.o vcf.o vcf2genoLoader.o -lz -lm -lbz2 zstd/lib/common/debug.o zstd/lib/common/entropy_common.o zstd/lib/common/error_private.o zstd/lib/common/fse_decompress.o zstd/lib/common/pool.o zstd/lib/common/threading.o zstd/lib/common/xxhash.o zstd/lib/common/zstd_common.o zstd/lib/compress/fse_compress.o zstd/lib/compress/hist.o zstd/lib/compress/huf_compress.o zstd/lib/compress/zstd_compress.o zstd/lib/compress/zstd_double_fast.o zstd/lib/compress/zstd_fast.o zstd/lib/compress/zstd_lazy.o zstd/lib/compress/zstd_ldm.o zstd/lib/compress/zstd_opt.o zstd/lib/compress/zstdmt_compress.o zstd/lib/decompress/huf_decompress.o zstd/lib/decompress/zstd_decompress.o zstd/lib/deprecated/zbuff_common.o zstd/lib/deprecated/zbuff_compress.o zstd/lib/deprecated/zbuff_decompress.o zstd/lib/dictBuilder/cover.o zstd/lib/dictBuilder/divsufsort.o zstd/lib/dictBuilder/fastcover.o zstd/lib/dictBuilder/zdict.o zstd/lib/legacy/zstd_v05.o zstd/lib/legacy/zstd_v06.o zstd/lib/legacy/zstd_v07.o sqlite/sqlite3.o -L/usr/lib64/R/lib -lR installing to /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64/usr/local/lib/R/library/00LOCK-seqminer/00new/seqminer/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘seqminer’ finding HTML links ... done SEQMINER html addJob html annotateGene html annotatePlain html annotateVcf html createSingleChromosomeBCFIndex html createSingleChromosomeVCFIndex html download.annotation.resource html getCovPair html getRefBase html hasIndex html isDirWritable html isInRange html isTabixRange html isURL html makeAnnotationParameter html newJob html newWorkflow html openPlink html readBGENToListByGene html readBGENToListByRange html readBGENToMatrixByGene html readBGENToMatrixByRange html readPlinkToMatrixByIndex html readSingleChromosomeBCFToMatrixByRange html readSingleChromosomeVCFToMatrixByRange html readVCFToListByGene html readVCFToListByRange html readVCFToMatrixByGene html readVCFToMatrixByRange html rvmeta.readCovByRange html rvmeta.readDataByGene html rvmeta.readDataByRange html rvmeta.readNullModel html rvmeta.readScoreByRange html rvmeta.readSkewByRange html rvmeta.writeCovData html rvmeta.writeScoreData html sub-.PlinkFile html tabix.createIndex html tabix.createIndex.meta html tabix.createIndex.vcf html tabix.read html tabix.read.header html tabix.read.table html validateAnnotationParameter html verifyFilename html writeWorkflow html ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (seqminer) + test -d seqminer/src + cd seqminer/src + rm -f BCFReader.o BGenFile.o BGenIndex.o BGenVariant.o Exception.o FileIO.o GeneLoader.o MmapFile.o PatternMatch.o PeopleSet.o PlinkInputFile.o PlinkOutputFile.o Profiler.o R_CPP_interface.o RangeList.o Rannotation.o SimpleMatrix.o SingleChromosomeBCFIndex.o SingleChromosomeVCFIndex.o TypeConversion.o Utils.o VCFHeader.o VCFIndividual.o VCFInfo.o VCFInputFile.o VCFUtil.o bcf.o bcf_index.o bcfutils.o bedidx.o bgen2genoLoader.o bgzf.o knetfile.o kstring.o plink2genoLoader.o rvMetaLoader.o scbcf2genoLoader.o scvcf2genoLoader.o seqForStat.o seqminer.o seqminer_init.o tabixLoader.o tabix_index.o vcf.o vcf2genoLoader.o seqminer.so + rm -f /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64/usr/local/lib/R/library/R.css + find /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64/usr/local/lib/R/library -type f -exec sed -i s@/builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64@@g '{}' ';' + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 9.7-1.fc39.copr8103944 --unique-debug-suffix -9.7-1.fc39.copr8103944.x86_64 --unique-debug-src-base R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/seqminer find-debuginfo: starting Extracting debug info from 1 files DWARF-compressing 1 files sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match. Creating .debug symlinks for symlinks to ELF files Copying sources found by 'debugedit -l' to /usr/src/debug/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 23950 blocks find-debuginfo: done + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/redhat/brp-mangle-shebangs + /usr/lib/rpm/brp-remove-la-files + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j2 + /usr/lib/rpm/redhat/brp-python-hardlink Processing files: R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 Provides: R-CRAN-seqminer = 9.7-1.fc39.copr8103944 R-CRAN-seqminer(x86-64) = 9.7-1.fc39.copr8103944 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libR.so()(64bit) libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.15)(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.28)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) libz.so.1()(64bit) rtld(GNU_HASH) Processing files: R-CRAN-seqminer-debugsource-9.7-1.fc39.copr8103944.x86_64 Provides: R-CRAN-seqminer-debugsource = 9.7-1.fc39.copr8103944 R-CRAN-seqminer-debugsource(x86-64) = 9.7-1.fc39.copr8103944 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-CRAN-seqminer-debuginfo-9.7-1.fc39.copr8103944.x86_64 Provides: R-CRAN-seqminer-debuginfo = 9.7-1.fc39.copr8103944 R-CRAN-seqminer-debuginfo(x86-64) = 9.7-1.fc39.copr8103944 debuginfo(build-id) = 58c192b6149b5a228ced27e8e8bb34addb62571b Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-CRAN-seqminer-debugsource(x86-64) = 9.7-1.fc39.copr8103944 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 Wrote: /builddir/build/RPMS/R-CRAN-seqminer-debugsource-9.7-1.fc39.copr8103944.x86_64.rpm Wrote: /builddir/build/RPMS/R-CRAN-seqminer-debuginfo-9.7-1.fc39.copr8103944.x86_64.rpm Wrote: /builddir/build/RPMS/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.I70ByX + umask 022 + cd /builddir/build/BUILD + cd seqminer + /usr/bin/rm -rf /builddir/build/BUILDROOT/R-CRAN-seqminer-9.7-1.fc39.copr8103944.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.faOTOu + umask 022 + cd /builddir/build/BUILD + rm -rf /builddir/build/BUILD/seqminer-SPECPARTS + rm -rf seqminer seqminer.gemspec + RPM_EC=0 ++ jobs -p + exit 0 RPM build warnings: source_date_epoch_from_changelog set but %changelog is missing Finish: rpmbuild R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm Finish: build phase for R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-39-x86_64-1727920733.819871/root/var/log/dnf.log /var/lib/mock/fedora-39-x86_64-1727920733.819871/root/var/log/dnf.librepo.log /var/lib/mock/fedora-39-x86_64-1727920733.819871/root/var/log/dnf.rpm.log INFO: Done(/var/lib/copr-rpmbuild/results/R-CRAN-seqminer-9.7-1.fc39.copr8103944.src.rpm) Config(child) 3 minutes 53 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running RPMResults tool Package info: { "packages": [ { "name": "R-CRAN-seqminer", "epoch": null, "version": "9.7", "release": "1.fc39.copr8103944", "arch": "x86_64" }, { "name": "R-CRAN-seqminer-debuginfo", "epoch": null, "version": "9.7", "release": "1.fc39.copr8103944", "arch": "x86_64" }, { "name": "R-CRAN-seqminer", "epoch": null, "version": "9.7", "release": "1.fc39.copr8103944", "arch": "src" }, { "name": "R-CRAN-seqminer-debugsource", "epoch": null, "version": "9.7", "release": "1.fc39.copr8103944", "arch": "x86_64" } ] } RPMResults finished