Warning: Permanently added '162.133.129.242' (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/6407839-fedora-rawhide-s390x --chroot fedora-rawhide-s390x Version: 0.69 PID: 32826 Logging PID: 32827 Task: {'appstream': False, 'background': True, 'build_id': 6407839, 'buildroot_pkgs': [], 'chroot': 'fedora-rawhide-s390x', 'enable_net': False, 'fedora_review': False, 'git_hash': 'df6b1de2eecf9ffcb551247d0ec58aa16cf5b345', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/tuliom/zlib-ng-compat-mpb/python-pysam', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'python-pysam', 'package_version': '0.21.0-2', 'project_dirname': 'zlib-ng-compat-mpb', 'project_name': 'zlib-ng-compat-mpb', 'project_owner': 'tuliom', 'repo_priority': None, 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/tuliom/zlib-ng-compat-mpb/fedora-rawhide-s390x/', 'id': 'copr_base', 'name': 'Copr repository', 'priority': None}], 'sandbox': 'tuliom/zlib-ng-compat-mpb--tuliom', 'source_json': {}, 'source_type': None, 'submitter': 'tuliom', 'tags': [], 'task_id': '6407839-fedora-rawhide-s390x', 'timeout': 115200, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/tuliom/zlib-ng-compat-mpb/python-pysam /var/lib/copr-rpmbuild/workspace/workdir-8x23x416/python-pysam --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/tuliom/zlib-ng-compat-mpb/python-pysam', '/var/lib/copr-rpmbuild/workspace/workdir-8x23x416/python-pysam', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-8x23x416/python-pysam'... Running: git checkout df6b1de2eecf9ffcb551247d0ec58aa16cf5b345 -- cmd: ['git', 'checkout', 'df6b1de2eecf9ffcb551247d0ec58aa16cf5b345', '--'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-8x23x416/python-pysam rc: 0 stdout: stderr: Note: switching to 'df6b1de2eecf9ffcb551247d0ec58aa16cf5b345'. 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 df6b1de automatic import of python-pysam 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-8x23x416/python-pysam 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 pysam-0.21.0.tar.gz INFO: Reading stdout from command: curl --help all INFO: Calling: curl -H Pragma: -o pysam-0.21.0.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/tuliom/zlib-ng-compat-mpb/python-pysam/pysam-0.21.0.tar.gz/md5/dca7fb36d2cf69ef887fe05ddd726998/pysam-0.21.0.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 3957k 100 3957k 0 0 2084k 0 0:00:01 0:00:01 --:--:-- 2084k INFO: Reading stdout from command: md5sum pysam-0.21.0.tar.gz Running (timeout=115200): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-8x23x416/python-pysam/python-pysam.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-8x23x416/python-pysam --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1694975550.734558 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 5.1 starting (python version = 3.11.3, NVR = mock-5.1-1.fc38)... Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins 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-8x23x416/python-pysam/python-pysam.spec) Config(fedora-rawhide-s390x) Start: clean chroot Finish: clean chroot Mock Version: 5.1 INFO: Mock Version: 5.1 Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-s390x-bootstrap-1694975550.734558/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: Guessed host environment type: unknown INFO: Using bootstrap image: registry.fedoraproject.org/fedora:rawhide INFO: Pulling image: registry.fedoraproject.org/fedora:rawhide INFO: Copy content of container registry.fedoraproject.org/fedora:rawhide to /var/lib/mock/fedora-rawhide-s390x-bootstrap-1694975550.734558/root INFO: Checking that registry.fedoraproject.org/fedora:rawhide image matches host's architecture INFO: mounting registry.fedoraproject.org/fedora:rawhide with podman image mount INFO: image registry.fedoraproject.org/fedora:rawhide as /var/lib/containers/storage/overlay/048a30d242435471510b8c750dbc9cf86e41860183b8bd626e06a27f1e4c6a85/merged INFO: umounting image registry.fedoraproject.org/fedora:rawhide (/var/lib/containers/storage/overlay/048a30d242435471510b8c750dbc9cf86e41860183b8bd626e06a27f1e4c6a85/merged) with podman image umount INFO: Package manager dnf detected and used (fallback) INFO: Bootstrap image not marked ready Start(bootstrap): installing dnf tooling No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 330 kB/s | 1.8 MB 00:05 fedora 6.1 MB/s | 63 MB 00:10 Last metadata expiration check: 0:00:01 ago on Sun Sep 17 18:32:51 2023. Package python3-dnf-4.16.2-4.fc40.noarch is already installed. Dependencies resolved. ================================================================================ Package Arch Version Repository Size ================================================================================ Installing: python3-dnf-plugins-core noarch 4.4.2-1.fc39 fedora 293 k Installing dependencies: dbus-libs s390x 1:1.14.10-1.fc40 fedora 159 k python3-dateutil noarch 1:2.8.2-10.fc39 fedora 355 k python3-dbus s390x 1.3.2-4.fc39 fedora 157 k python3-distro noarch 1.8.0-6.fc39 fedora 49 k python3-six noarch 1.16.0-12.fc39 fedora 41 k python3-systemd s390x 235-5.fc39 fedora 106 k Transaction Summary ================================================================================ Install 7 Packages Total download size: 1.1 M Installed size: 3.5 M Downloading Packages: (1/7): dbus-libs-1.14.10-1.fc40.s390x.rpm 152 kB/s | 159 kB 00:01 (2/7): python3-dbus-1.3.2-4.fc39.s390x.rpm 145 kB/s | 157 kB 00:01 (3/7): python3-distro-1.8.0-6.fc39.noarch.rpm 222 kB/s | 49 kB 00:00 (4/7): python3-dateutil-2.8.2-10.fc39.noarch.rp 270 kB/s | 355 kB 00:01 (5/7): python3-six-1.16.0-12.fc39.noarch.rpm 193 kB/s | 41 kB 00:00 (6/7): python3-systemd-235-5.fc39.s390x.rpm 469 kB/s | 106 kB 00:00 (7/7): python3-dnf-plugins-core-4.4.2-1.fc39.no 610 kB/s | 293 kB 00:00 -------------------------------------------------------------------------------- Total 556 kB/s | 1.1 MB 00:02 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Preparing : 1/1 Installing : python3-systemd-235-5.fc39.s390x 1/7 Installing : python3-six-1.16.0-12.fc39.noarch 2/7 Installing : python3-dateutil-1:2.8.2-10.fc39.noarch 3/7 Installing : python3-distro-1.8.0-6.fc39.noarch 4/7 Installing : dbus-libs-1:1.14.10-1.fc40.s390x 5/7 Installing : python3-dbus-1.3.2-4.fc39.s390x 6/7 Installing : python3-dnf-plugins-core-4.4.2-1.fc39.noarch 7/7 Running scriptlet: python3-dnf-plugins-core-4.4.2-1.fc39.noarch 7/7 Verifying : dbus-libs-1:1.14.10-1.fc40.s390x 1/7 Verifying : python3-dateutil-1:2.8.2-10.fc39.noarch 2/7 Verifying : python3-dbus-1.3.2-4.fc39.s390x 3/7 Verifying : python3-distro-1.8.0-6.fc39.noarch 4/7 Verifying : python3-dnf-plugins-core-4.4.2-1.fc39.noarch 5/7 Verifying : python3-six-1.16.0-12.fc39.noarch 6/7 Verifying : python3-systemd-235-5.fc39.s390x 7/7 Installed: dbus-libs-1:1.14.10-1.fc40.s390x python3-dateutil-1:2.8.2-10.fc39.noarch python3-dbus-1.3.2-4.fc39.s390x python3-distro-1.8.0-6.fc39.noarch python3-dnf-plugins-core-4.4.2-1.fc39.noarch python3-six-1.16.0-12.fc39.noarch python3-systemd-235-5.fc39.s390x Complete! Finish(bootstrap): installing dnf tooling Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-s390x-1694975550.734558/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 (direct choice) Start: installing minimal buildroot with dnf No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 8.2 kB/s | 1.5 kB 00:00 Copr repository 173 kB/s | 1.8 MB 00:10 fedora 10 kB/s | 5.5 kB 00:00 Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing group/module packages: bash s390x 5.2.15-5.fc39 fedora 1.8 M bzip2 s390x 1.0.8-16.fc39 fedora 53 k coreutils s390x 9.4-1.fc40 fedora 1.2 M cpio s390x 2.14-4.fc39 fedora 283 k diffutils s390x 3.10-3.fc39 fedora 407 k fedora-release-common noarch 40-0.7 fedora 18 k findutils s390x 1:4.9.0-6.fc40 fedora 497 k gawk s390x 5.2.2-2.fc39 fedora 1.1 M glibc-minimal-langpack s390x 2.38.9000-8.fc40 copr_base 73 k grep s390x 3.11-5.fc40 fedora 305 k gzip s390x 1.12-6.fc39 fedora 173 k info s390x 7.0.3-3.fc39 fedora 192 k patch s390x 2.7.6-22.fc39 fedora 134 k redhat-rpm-config noarch 270-1.fc40 copr_base 74 k rpm-build s390x 4.18.99-1.fc40 fedora 78 k sed s390x 4.8-14.fc39 fedora 309 k shadow-utils s390x 2:4.14.0-1.fc40 fedora 1.3 M tar s390x 2:1.35-2.fc40 fedora 874 k unzip s390x 6.0-62.fc39 fedora 194 k util-linux s390x 2.39.2-1.fc40 fedora 1.1 M which s390x 2.21-40.fc39 fedora 43 k xz s390x 5.4.4-1.fc39 fedora 557 k Installing dependencies: alternatives s390x 1.25-1.fc39 fedora 39 k ansible-srpm-macros noarch 1-11.fc39 fedora 21 k audit-libs s390x 3.1.2-4.fc40 fedora 121 k authselect s390x 1.4.2-3.fc39 fedora 144 k authselect-libs s390x 1.4.2-3.fc39 fedora 247 k basesystem noarch 11-18.fc39 fedora 7.2 k binutils s390x 2.41-5.fc40 fedora 5.9 M binutils-gold s390x 2.41-5.fc40 fedora 993 k bzip2-libs s390x 1.0.8-16.fc39 fedora 46 k ca-certificates noarch 2023.2.60_v7.0.306-3.fc40 fedora 837 k coreutils-common s390x 9.4-1.fc40 fedora 2.1 M cracklib s390x 2.9.11-2.fc40 copr_base 84 k crypto-policies noarch 20230731-1.git5ed06e0.fc39 fedora 99 k curl s390x 8.3.0-1.fc40 copr_base 354 k cyrus-sasl-lib s390x 2.1.28-11.fc39 fedora 819 k debugedit s390x 5.0-10.fc39 fedora 81 k dwz s390x 0.15-3.fc39 fedora 144 k ed s390x 1.19-4.fc39 fedora 80 k efi-srpm-macros noarch 5-9.fc39 fedora 22 k elfutils s390x 0.189-6.fc40 fedora 560 k elfutils-debuginfod-client s390x 0.189-6.fc40 fedora 38 k elfutils-default-yama-scope noarch 0.189-6.fc40 fedora 13 k elfutils-libelf s390x 0.189-6.fc40 fedora 200 k elfutils-libs s390x 0.189-6.fc40 fedora 275 k fedora-gpg-keys noarch 40-0.1 fedora 130 k fedora-release noarch 40-0.7 fedora 8.0 k fedora-release-identity-basic noarch 40-0.7 fedora 8.8 k fedora-repos noarch 40-0.1 fedora 9.4 k fedora-repos-rawhide noarch 40-0.1 fedora 9.0 k file s390x 5.45-1.fc40 copr_base 50 k file-libs s390x 5.45-1.fc40 copr_base 770 k filesystem s390x 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 0.1.0-1.fc40 fedora 18 k fpc-srpm-macros noarch 1.3-8.fc39 fedora 7.4 k gdb-minimal s390x 13.2-8.fc40 fedora 4.0 M gdbm-libs s390x 1:1.23-4.fc39 fedora 58 k ghc-srpm-macros noarch 1.6.1-2.fc39 fedora 7.8 k glibc s390x 2.38.9000-8.fc40 copr_base 1.8 M glibc-common s390x 2.38.9000-8.fc40 copr_base 368 k glibc-gconv-extra s390x 2.38.9000-8.fc40 copr_base 1.6 M gmp s390x 1:6.2.1-5.fc39 fedora 325 k gnat-srpm-macros noarch 6-3.fc39 fedora 8.8 k go-srpm-macros noarch 3.2.0-7.fc40 fedora 27 k jansson s390x 2.13.1-7.fc39 fedora 44 k kernel-srpm-macros noarch 1.0-20.fc39 fedora 10 k keyutils-libs s390x 1.6.1-7.fc39 fedora 31 k krb5-libs s390x 1.21.2-1.fc40 fedora 780 k libacl s390x 2.3.1-9.fc40 fedora 24 k libarchive s390x 3.7.2-1.fc40 fedora 440 k libattr s390x 2.5.1-9.fc40 fedora 18 k libblkid s390x 2.39.2-1.fc40 fedora 120 k libbrotli s390x 1.1.0-1.fc40 fedora 379 k libcap s390x 2.48-7.fc39 fedora 69 k libcap-ng s390x 0.8.3-8.fc40 fedora 32 k libcom_err s390x 1.47.0-2.fc39 fedora 26 k libcurl s390x 8.3.0-1.fc40 copr_base 362 k libdb s390x 5.3.28-58.fc40 copr_base 775 k libeconf s390x 0.5.2-1.fc40 fedora 32 k libevent s390x 2.1.12-9.fc39 fedora 260 k libfdisk s390x 2.39.2-1.fc40 fedora 165 k libffi s390x 3.4.4-4.fc39 fedora 36 k libgcc s390x 13.2.1-1.fc40 copr_base 82 k libgomp s390x 13.2.1-1.fc40 copr_base 323 k libidn2 s390x 2.3.4-3.fc39 fedora 118 k libmount s390x 2.39.2-1.fc40 fedora 158 k libnghttp2 s390x 1.56.0-1.fc40 fedora 78 k libnsl2 s390x 2.0.0-6.fc39 fedora 30 k libpkgconf s390x 1.9.5-2.fc39 fedora 38 k libpsl s390x 0.21.2-4.fc39 fedora 63 k libpwquality s390x 1.4.5-6.fc39 fedora 121 k libselinux s390x 3.5-5.fc39 fedora 91 k libsemanage s390x 3.5-4.fc39 fedora 122 k libsepol s390x 3.5-2.fc39 fedora 330 k libsigsegv s390x 2.14-5.fc39 fedora 27 k libsmartcols s390x 2.39.2-1.fc40 fedora 70 k libssh s390x 0.10.5-2.fc39 fedora 209 k libssh-config noarch 0.10.5-2.fc39 fedora 9.2 k libstdc++ s390x 13.2.1-1.fc40 copr_base 949 k libtasn1 s390x 4.19.0-3.fc39 fedora 77 k libtirpc s390x 1.3.3-1.rc2.fc39 fedora 95 k libunistring s390x 1.1-5.fc40 fedora 556 k libutempter s390x 1.2.1-10.fc39 fedora 26 k libuuid s390x 2.39.2-1.fc40 fedora 28 k libverto s390x 0.3.2-6.fc39 fedora 21 k libxcrypt s390x 4.4.36-2.fc39 fedora 124 k libxml2 s390x 2.11.5-1.fc40 copr_base 711 k libzstd s390x 1.5.5-4.fc40 copr_base 343 k lua-libs s390x 5.4.6-3.fc39 fedora 142 k lua-srpm-macros noarch 1-9.fc39 fedora 8.6 k lz4-libs s390x 1.9.4-4.fc39 fedora 81 k mpfr s390x 4.2.0-3.fc39 fedora 298 k ncurses-base noarch 6.4-7.20230520.fc40 fedora 88 k ncurses-libs s390x 6.4-7.20230520.fc40 fedora 361 k ocaml-srpm-macros noarch 8-2.fc39 fedora 14 k openblas-srpm-macros noarch 2-14.fc39 fedora 7.5 k openldap s390x 2.6.6-1.fc39 fedora 262 k openssl-libs s390x 1:3.1.1-4.fc40 copr_base 1.9 M p11-kit s390x 0.25.0-2.fc39 fedora 507 k p11-kit-trust s390x 0.25.0-2.fc39 fedora 141 k package-notes-srpm-macros noarch 0.5-9.fc39 fedora 11 k pam s390x 1.5.3-2.fc39 fedora 558 k pam-libs s390x 1.5.3-2.fc39 fedora 59 k pcre2 s390x 10.42-1.fc39.2 fedora 250 k pcre2-syntax noarch 10.42-1.fc39.2 fedora 143 k perl-srpm-macros noarch 1-51.fc39 fedora 8.0 k pkgconf s390x 1.9.5-2.fc39 fedora 43 k pkgconf-m4 noarch 1.9.5-2.fc39 fedora 14 k pkgconf-pkg-config s390x 1.9.5-2.fc39 fedora 9.6 k popt s390x 1.19-3.fc39 fedora 69 k publicsuffix-list-dafsa noarch 20230812-1.fc40 fedora 57 k pyproject-srpm-macros noarch 1.9.0-2.fc39 fedora 14 k python-srpm-macros noarch 3.12-4.fc40 fedora 25 k qt5-srpm-macros noarch 5.15.10-2.fc39 fedora 8.3 k qt6-srpm-macros noarch 6.5.2-2.fc39 fedora 9.2 k readline s390x 8.2-4.fc39 fedora 229 k rpm s390x 4.18.99-1.fc40 fedora 538 k rpm-build-libs s390x 4.18.99-1.fc40 fedora 97 k rpm-libs s390x 4.18.99-1.fc40 fedora 323 k rpm-sequoia s390x 1.5.0-1.fc40 fedora 1.0 M rust-srpm-macros noarch 24-5.fc40 fedora 12 k setup noarch 2.14.4-1.fc39 fedora 154 k sqlite-libs s390x 3.43.1-1.fc40 fedora 737 k systemd-libs s390x 254.1-2.fc40 fedora 696 k tzdata noarch 2023c-3.fc40 fedora 718 k util-linux-core s390x 2.39.2-1.fc40 fedora 496 k xxhash-libs s390x 0.8.2-1.fc39 fedora 37 k xz-libs s390x 5.4.4-1.fc39 fedora 114 k zip s390x 3.0-38.fc39 fedora 283 k zlib-ng-compat s390x 2.1.3-3.fc40 copr_base 71 k zstd s390x 1.5.5-4.fc40 copr_base 506 k Installing Groups: Buildsystem building group Transaction Summary ================================================================================ Install 153 Packages Total size: 53 M Installed size: 181 M Downloading Packages: [SKIPPED] cracklib-2.9.11-2.fc40.s390x.rpm: Already downloaded [SKIPPED] curl-8.3.0-1.fc40.s390x.rpm: Already downloaded [SKIPPED] file-5.45-1.fc40.s390x.rpm: Already downloaded [SKIPPED] file-libs-5.45-1.fc40.s390x.rpm: Already downloaded [SKIPPED] glibc-2.38.9000-8.fc40.s390x.rpm: Already downloaded [SKIPPED] glibc-common-2.38.9000-8.fc40.s390x.rpm: Already downloaded [SKIPPED] glibc-gconv-extra-2.38.9000-8.fc40.s390x.rpm: Already downloaded [SKIPPED] glibc-minimal-langpack-2.38.9000-8.fc40.s390x.rpm: Already downloaded [SKIPPED] libcurl-8.3.0-1.fc40.s390x.rpm: Already downloaded [SKIPPED] libdb-5.3.28-58.fc40.s390x.rpm: Already downloaded [SKIPPED] libgcc-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] libgomp-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] libstdc++-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] libxml2-2.11.5-1.fc40.s390x.rpm: Already downloaded [SKIPPED] libzstd-1.5.5-4.fc40.s390x.rpm: Already downloaded [SKIPPED] openssl-libs-3.1.1-4.fc40.s390x.rpm: Already downloaded [SKIPPED] redhat-rpm-config-270-1.fc40.noarch.rpm: Already downloaded [SKIPPED] zlib-ng-compat-2.1.3-3.fc40.s390x.rpm: Already downloaded [SKIPPED] zstd-1.5.5-4.fc40.s390x.rpm: Already downloaded [SKIPPED] alternatives-1.25-1.fc39.s390x.rpm: Already downloaded [SKIPPED] ansible-srpm-macros-1-11.fc39.noarch.rpm: Already downloaded [SKIPPED] audit-libs-3.1.2-4.fc40.s390x.rpm: Already downloaded [SKIPPED] authselect-1.4.2-3.fc39.s390x.rpm: Already downloaded [SKIPPED] authselect-libs-1.4.2-3.fc39.s390x.rpm: Already downloaded [SKIPPED] basesystem-11-18.fc39.noarch.rpm: Already downloaded [SKIPPED] bash-5.2.15-5.fc39.s390x.rpm: Already downloaded [SKIPPED] binutils-2.41-5.fc40.s390x.rpm: Already downloaded [SKIPPED] binutils-gold-2.41-5.fc40.s390x.rpm: Already downloaded [SKIPPED] bzip2-1.0.8-16.fc39.s390x.rpm: Already downloaded [SKIPPED] bzip2-libs-1.0.8-16.fc39.s390x.rpm: Already downloaded [SKIPPED] ca-certificates-2023.2.60_v7.0.306-3.fc40.noarch.rpm: Already downloaded [SKIPPED] coreutils-9.4-1.fc40.s390x.rpm: Already downloaded [SKIPPED] coreutils-common-9.4-1.fc40.s390x.rpm: Already downloaded [SKIPPED] cpio-2.14-4.fc39.s390x.rpm: Already downloaded [SKIPPED] crypto-policies-20230731-1.git5ed06e0.fc39.noarch.rpm: Already downloaded [SKIPPED] cyrus-sasl-lib-2.1.28-11.fc39.s390x.rpm: Already downloaded [SKIPPED] debugedit-5.0-10.fc39.s390x.rpm: Already downloaded [SKIPPED] diffutils-3.10-3.fc39.s390x.rpm: Already downloaded [SKIPPED] dwz-0.15-3.fc39.s390x.rpm: Already downloaded [SKIPPED] ed-1.19-4.fc39.s390x.rpm: Already downloaded [SKIPPED] efi-srpm-macros-5-9.fc39.noarch.rpm: Already downloaded [SKIPPED] elfutils-0.189-6.fc40.s390x.rpm: Already downloaded [SKIPPED] elfutils-debuginfod-client-0.189-6.fc40.s390x.rpm: Already downloaded [SKIPPED] elfutils-default-yama-scope-0.189-6.fc40.noarch.rpm: Already downloaded [SKIPPED] elfutils-libelf-0.189-6.fc40.s390x.rpm: Already downloaded [SKIPPED] elfutils-libs-0.189-6.fc40.s390x.rpm: Already downloaded [SKIPPED] fedora-gpg-keys-40-0.1.noarch.rpm: Already downloaded [SKIPPED] fedora-release-40-0.7.noarch.rpm: Already downloaded [SKIPPED] fedora-release-common-40-0.7.noarch.rpm: Already 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[SKIPPED] sqlite-libs-3.43.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] systemd-libs-254.1-2.fc40.s390x.rpm: Already downloaded [SKIPPED] tar-1.35-2.fc40.s390x.rpm: Already downloaded [SKIPPED] tzdata-2023c-3.fc40.noarch.rpm: Already downloaded [SKIPPED] unzip-6.0-62.fc39.s390x.rpm: Already downloaded [SKIPPED] util-linux-2.39.2-1.fc40.s390x.rpm: Already downloaded [SKIPPED] util-linux-core-2.39.2-1.fc40.s390x.rpm: Already downloaded [SKIPPED] which-2.21-40.fc39.s390x.rpm: Already downloaded [SKIPPED] xxhash-libs-0.8.2-1.fc39.s390x.rpm: Already downloaded [SKIPPED] xz-5.4.4-1.fc39.s390x.rpm: Already downloaded [SKIPPED] xz-libs-5.4.4-1.fc39.s390x.rpm: Already downloaded [SKIPPED] zip-3.0-38.fc39.s390x.rpm: Already downloaded fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0xA15B79CC: Userid : "Fedora (40) " Fingerprint: 115D F9AE F857 853E E844 5D0A 0727 707E A15B 79CC From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-40-primary Key imported successfully fedora 1.6 MB/s | 1.6 kB 00:00 GPG key at file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-40-primary (0xA15B79CC) is already installed 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. 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authselect-libs-1.4.2-3.fc39.s390x 118/153 Installing : gzip-1.12-6.fc39.s390x 119/153 Installing : cracklib-2.9.11-2.fc40.s390x 120/153 Installing : libpwquality-1.4.5-6.fc39.s390x 121/153 Installing : authselect-1.4.2-3.fc39.s390x 122/153 Installing : libnsl2-2.0.0-6.fc39.s390x 123/153 Installing : pam-1.5.3-2.fc39.s390x 124/153 Installing : libssh-0.10.5-2.fc39.s390x 125/153 Installing : libarchive-3.7.2-1.fc40.s390x 126/153 Installing : libevent-2.1.12-9.fc39.s390x 127/153 Installing : openldap-2.6.6-1.fc39.s390x 128/153 Installing : libcurl-8.3.0-1.fc40.s390x 129/153 Installing : elfutils-debuginfod-client-0.189-6.fc40.s390x 130/153 Installing : elfutils-libs-0.189-6.fc40.s390x 131/153 Installing : binutils-gold-2.41-5.fc40.s390x 132/153 Running scriptlet: binutils-gold-2.41-5.fc40.s390x 132/153 Installing : binutils-2.41-5.fc40.s390x 133/153 Running scriptlet: binutils-2.41-5.fc40.s390x 133/153 Installing : elfutils-0.189-6.fc40.s390x 134/153 Installing : gdb-minimal-13.2-8.fc40.s390x 135/153 Installing : debugedit-5.0-10.fc39.s390x 136/153 Installing : curl-8.3.0-1.fc40.s390x 137/153 Installing : rpm-sequoia-1.5.0-1.fc40.s390x 138/153 Installing : rpm-libs-4.18.99-1.fc40.s390x 139/153 Running scriptlet: rpm-4.18.99-1.fc40.s390x 140/153 Installing : rpm-4.18.99-1.fc40.s390x 140/153 Installing : efi-srpm-macros-5-9.fc39.noarch 141/153 Installing : lua-srpm-macros-1-9.fc39.noarch 142/153 Installing : rpm-build-libs-4.18.99-1.fc40.s390x 143/153 Installing : ansible-srpm-macros-1-11.fc39.noarch 144/153 Installing : fonts-srpm-macros-1:2.0.5-12.fc39.noarch 145/153 Installing : forge-srpm-macros-0.1.0-1.fc40.noarch 146/153 Installing : go-srpm-macros-3.2.0-7.fc40.noarch 147/153 Installing : python-srpm-macros-3.12-4.fc40.noarch 148/153 Installing : redhat-rpm-config-270-1.fc40.noarch 149/153 Installing : rpm-build-4.18.99-1.fc40.s390x 150/153 Installing : util-linux-2.39.2-1.fc40.s390x 151/153 Installing : which-2.21-40.fc39.s390x 152/153 Installing : info-7.0.3-3.fc39.s390x 153/153 Running scriptlet: filesystem-3.18-6.fc39.s390x 153/153 Running scriptlet: ca-certificates-2023.2.60_v7.0.306-3.fc40.noarch 153/153 Running scriptlet: authselect-libs-1.4.2-3.fc39.s390x 153/153 Running scriptlet: rpm-4.18.99-1.fc40.s390x 153/153 Running scriptlet: info-7.0.3-3.fc39.s390x 153/153 Verifying : cracklib-2.9.11-2.fc40.s390x 1/153 Verifying : curl-8.3.0-1.fc40.s390x 2/153 Verifying : file-5.45-1.fc40.s390x 3/153 Verifying : file-libs-5.45-1.fc40.s390x 4/153 Verifying : glibc-2.38.9000-8.fc40.s390x 5/153 Verifying : glibc-common-2.38.9000-8.fc40.s390x 6/153 Verifying : glibc-gconv-extra-2.38.9000-8.fc40.s390x 7/153 Verifying : glibc-minimal-langpack-2.38.9000-8.fc40.s390x 8/153 Verifying : libcurl-8.3.0-1.fc40.s390x 9/153 Verifying : libdb-5.3.28-58.fc40.s390x 10/153 Verifying : libgcc-13.2.1-1.fc40.s390x 11/153 Verifying : libgomp-13.2.1-1.fc40.s390x 12/153 Verifying : libstdc++-13.2.1-1.fc40.s390x 13/153 Verifying : libxml2-2.11.5-1.fc40.s390x 14/153 Verifying : libzstd-1.5.5-4.fc40.s390x 15/153 Verifying : openssl-libs-1:3.1.1-4.fc40.s390x 16/153 Verifying : redhat-rpm-config-270-1.fc40.noarch 17/153 Verifying : zlib-ng-compat-2.1.3-3.fc40.s390x 18/153 Verifying : zstd-1.5.5-4.fc40.s390x 19/153 Verifying : alternatives-1.25-1.fc39.s390x 20/153 Verifying : ansible-srpm-macros-1-11.fc39.noarch 21/153 Verifying : audit-libs-3.1.2-4.fc40.s390x 22/153 Verifying : authselect-1.4.2-3.fc39.s390x 23/153 Verifying : authselect-libs-1.4.2-3.fc39.s390x 24/153 Verifying : basesystem-11-18.fc39.noarch 25/153 Verifying : bash-5.2.15-5.fc39.s390x 26/153 Verifying : binutils-2.41-5.fc40.s390x 27/153 Verifying : binutils-gold-2.41-5.fc40.s390x 28/153 Verifying : bzip2-1.0.8-16.fc39.s390x 29/153 Verifying : bzip2-libs-1.0.8-16.fc39.s390x 30/153 Verifying : ca-certificates-2023.2.60_v7.0.306-3.fc40.noarch 31/153 Verifying : coreutils-9.4-1.fc40.s390x 32/153 Verifying : coreutils-common-9.4-1.fc40.s390x 33/153 Verifying : cpio-2.14-4.fc39.s390x 34/153 Verifying : crypto-policies-20230731-1.git5ed06e0.fc39.noarc 35/153 Verifying : cyrus-sasl-lib-2.1.28-11.fc39.s390x 36/153 Verifying : debugedit-5.0-10.fc39.s390x 37/153 Verifying : diffutils-3.10-3.fc39.s390x 38/153 Verifying : dwz-0.15-3.fc39.s390x 39/153 Verifying : ed-1.19-4.fc39.s390x 40/153 Verifying : efi-srpm-macros-5-9.fc39.noarch 41/153 Verifying : elfutils-0.189-6.fc40.s390x 42/153 Verifying : elfutils-debuginfod-client-0.189-6.fc40.s390x 43/153 Verifying : elfutils-default-yama-scope-0.189-6.fc40.noarch 44/153 Verifying : elfutils-libelf-0.189-6.fc40.s390x 45/153 Verifying : elfutils-libs-0.189-6.fc40.s390x 46/153 Verifying : fedora-gpg-keys-40-0.1.noarch 47/153 Verifying : fedora-release-40-0.7.noarch 48/153 Verifying : fedora-release-common-40-0.7.noarch 49/153 Verifying : fedora-release-identity-basic-40-0.7.noarch 50/153 Verifying : fedora-repos-40-0.1.noarch 51/153 Verifying : fedora-repos-rawhide-40-0.1.noarch 52/153 Verifying : filesystem-3.18-6.fc39.s390x 53/153 Verifying : findutils-1:4.9.0-6.fc40.s390x 54/153 Verifying : fonts-srpm-macros-1:2.0.5-12.fc39.noarch 55/153 Verifying : forge-srpm-macros-0.1.0-1.fc40.noarch 56/153 Verifying : fpc-srpm-macros-1.3-8.fc39.noarch 57/153 Verifying : gawk-5.2.2-2.fc39.s390x 58/153 Verifying : gdb-minimal-13.2-8.fc40.s390x 59/153 Verifying : gdbm-libs-1:1.23-4.fc39.s390x 60/153 Verifying : ghc-srpm-macros-1.6.1-2.fc39.noarch 61/153 Verifying : gmp-1:6.2.1-5.fc39.s390x 62/153 Verifying : gnat-srpm-macros-6-3.fc39.noarch 63/153 Verifying : go-srpm-macros-3.2.0-7.fc40.noarch 64/153 Verifying : grep-3.11-5.fc40.s390x 65/153 Verifying : gzip-1.12-6.fc39.s390x 66/153 Verifying : info-7.0.3-3.fc39.s390x 67/153 Verifying : jansson-2.13.1-7.fc39.s390x 68/153 Verifying : kernel-srpm-macros-1.0-20.fc39.noarch 69/153 Verifying : keyutils-libs-1.6.1-7.fc39.s390x 70/153 Verifying : krb5-libs-1.21.2-1.fc40.s390x 71/153 Verifying : libacl-2.3.1-9.fc40.s390x 72/153 Verifying : libarchive-3.7.2-1.fc40.s390x 73/153 Verifying : libattr-2.5.1-9.fc40.s390x 74/153 Verifying : libblkid-2.39.2-1.fc40.s390x 75/153 Verifying : libbrotli-1.1.0-1.fc40.s390x 76/153 Verifying : libcap-2.48-7.fc39.s390x 77/153 Verifying : libcap-ng-0.8.3-8.fc40.s390x 78/153 Verifying : libcom_err-1.47.0-2.fc39.s390x 79/153 Verifying : libeconf-0.5.2-1.fc40.s390x 80/153 Verifying : libevent-2.1.12-9.fc39.s390x 81/153 Verifying : libfdisk-2.39.2-1.fc40.s390x 82/153 Verifying : libffi-3.4.4-4.fc39.s390x 83/153 Verifying : libidn2-2.3.4-3.fc39.s390x 84/153 Verifying : libmount-2.39.2-1.fc40.s390x 85/153 Verifying : libnghttp2-1.56.0-1.fc40.s390x 86/153 Verifying : libnsl2-2.0.0-6.fc39.s390x 87/153 Verifying : libpkgconf-1.9.5-2.fc39.s390x 88/153 Verifying : libpsl-0.21.2-4.fc39.s390x 89/153 Verifying : libpwquality-1.4.5-6.fc39.s390x 90/153 Verifying : libselinux-3.5-5.fc39.s390x 91/153 Verifying : libsemanage-3.5-4.fc39.s390x 92/153 Verifying : libsepol-3.5-2.fc39.s390x 93/153 Verifying : libsigsegv-2.14-5.fc39.s390x 94/153 Verifying : libsmartcols-2.39.2-1.fc40.s390x 95/153 Verifying : libssh-0.10.5-2.fc39.s390x 96/153 Verifying : libssh-config-0.10.5-2.fc39.noarch 97/153 Verifying : libtasn1-4.19.0-3.fc39.s390x 98/153 Verifying : libtirpc-1.3.3-1.rc2.fc39.s390x 99/153 Verifying : libunistring-1.1-5.fc40.s390x 100/153 Verifying : libutempter-1.2.1-10.fc39.s390x 101/153 Verifying : libuuid-2.39.2-1.fc40.s390x 102/153 Verifying : libverto-0.3.2-6.fc39.s390x 103/153 Verifying : libxcrypt-4.4.36-2.fc39.s390x 104/153 Verifying : lua-libs-5.4.6-3.fc39.s390x 105/153 Verifying : lua-srpm-macros-1-9.fc39.noarch 106/153 Verifying : lz4-libs-1.9.4-4.fc39.s390x 107/153 Verifying : mpfr-4.2.0-3.fc39.s390x 108/153 Verifying : ncurses-base-6.4-7.20230520.fc40.noarch 109/153 Verifying : ncurses-libs-6.4-7.20230520.fc40.s390x 110/153 Verifying : ocaml-srpm-macros-8-2.fc39.noarch 111/153 Verifying : openblas-srpm-macros-2-14.fc39.noarch 112/153 Verifying : openldap-2.6.6-1.fc39.s390x 113/153 Verifying : p11-kit-0.25.0-2.fc39.s390x 114/153 Verifying : p11-kit-trust-0.25.0-2.fc39.s390x 115/153 Verifying : package-notes-srpm-macros-0.5-9.fc39.noarch 116/153 Verifying : pam-1.5.3-2.fc39.s390x 117/153 Verifying : pam-libs-1.5.3-2.fc39.s390x 118/153 Verifying : patch-2.7.6-22.fc39.s390x 119/153 Verifying : pcre2-10.42-1.fc39.2.s390x 120/153 Verifying : pcre2-syntax-10.42-1.fc39.2.noarch 121/153 Verifying : perl-srpm-macros-1-51.fc39.noarch 122/153 Verifying : pkgconf-1.9.5-2.fc39.s390x 123/153 Verifying : pkgconf-m4-1.9.5-2.fc39.noarch 124/153 Verifying : pkgconf-pkg-config-1.9.5-2.fc39.s390x 125/153 Verifying : popt-1.19-3.fc39.s390x 126/153 Verifying : publicsuffix-list-dafsa-20230812-1.fc40.noarch 127/153 Verifying : pyproject-srpm-macros-1.9.0-2.fc39.noarch 128/153 Verifying : python-srpm-macros-3.12-4.fc40.noarch 129/153 Verifying : qt5-srpm-macros-5.15.10-2.fc39.noarch 130/153 Verifying : qt6-srpm-macros-6.5.2-2.fc39.noarch 131/153 Verifying : readline-8.2-4.fc39.s390x 132/153 Verifying : rpm-4.18.99-1.fc40.s390x 133/153 Verifying : rpm-build-4.18.99-1.fc40.s390x 134/153 Verifying : rpm-build-libs-4.18.99-1.fc40.s390x 135/153 Verifying : rpm-libs-4.18.99-1.fc40.s390x 136/153 Verifying : rpm-sequoia-1.5.0-1.fc40.s390x 137/153 Verifying : rust-srpm-macros-24-5.fc40.noarch 138/153 Verifying : sed-4.8-14.fc39.s390x 139/153 Verifying : setup-2.14.4-1.fc39.noarch 140/153 Verifying : shadow-utils-2:4.14.0-1.fc40.s390x 141/153 Verifying : sqlite-libs-3.43.1-1.fc40.s390x 142/153 Verifying : systemd-libs-254.1-2.fc40.s390x 143/153 Verifying : tar-2:1.35-2.fc40.s390x 144/153 Verifying : tzdata-2023c-3.fc40.noarch 145/153 Verifying : unzip-6.0-62.fc39.s390x 146/153 Verifying : util-linux-2.39.2-1.fc40.s390x 147/153 Verifying : util-linux-core-2.39.2-1.fc40.s390x 148/153 Verifying : which-2.21-40.fc39.s390x 149/153 Verifying : xxhash-libs-0.8.2-1.fc39.s390x 150/153 Verifying : xz-5.4.4-1.fc39.s390x 151/153 Verifying : xz-libs-5.4.4-1.fc39.s390x 152/153 Verifying : zip-3.0-38.fc39.s390x 153/153 Installed: alternatives-1.25-1.fc39.s390x ansible-srpm-macros-1-11.fc39.noarch audit-libs-3.1.2-4.fc40.s390x authselect-1.4.2-3.fc39.s390x authselect-libs-1.4.2-3.fc39.s390x basesystem-11-18.fc39.noarch bash-5.2.15-5.fc39.s390x binutils-2.41-5.fc40.s390x binutils-gold-2.41-5.fc40.s390x bzip2-1.0.8-16.fc39.s390x bzip2-libs-1.0.8-16.fc39.s390x ca-certificates-2023.2.60_v7.0.306-3.fc40.noarch coreutils-9.4-1.fc40.s390x coreutils-common-9.4-1.fc40.s390x cpio-2.14-4.fc39.s390x cracklib-2.9.11-2.fc40.s390x crypto-policies-20230731-1.git5ed06e0.fc39.noarch curl-8.3.0-1.fc40.s390x cyrus-sasl-lib-2.1.28-11.fc39.s390x debugedit-5.0-10.fc39.s390x diffutils-3.10-3.fc39.s390x dwz-0.15-3.fc39.s390x ed-1.19-4.fc39.s390x efi-srpm-macros-5-9.fc39.noarch elfutils-0.189-6.fc40.s390x elfutils-debuginfod-client-0.189-6.fc40.s390x elfutils-default-yama-scope-0.189-6.fc40.noarch elfutils-libelf-0.189-6.fc40.s390x elfutils-libs-0.189-6.fc40.s390x fedora-gpg-keys-40-0.1.noarch fedora-release-40-0.7.noarch fedora-release-common-40-0.7.noarch fedora-release-identity-basic-40-0.7.noarch fedora-repos-40-0.1.noarch fedora-repos-rawhide-40-0.1.noarch file-5.45-1.fc40.s390x file-libs-5.45-1.fc40.s390x filesystem-3.18-6.fc39.s390x findutils-1:4.9.0-6.fc40.s390x fonts-srpm-macros-1:2.0.5-12.fc39.noarch forge-srpm-macros-0.1.0-1.fc40.noarch fpc-srpm-macros-1.3-8.fc39.noarch gawk-5.2.2-2.fc39.s390x gdb-minimal-13.2-8.fc40.s390x gdbm-libs-1:1.23-4.fc39.s390x ghc-srpm-macros-1.6.1-2.fc39.noarch glibc-2.38.9000-8.fc40.s390x glibc-common-2.38.9000-8.fc40.s390x glibc-gconv-extra-2.38.9000-8.fc40.s390x glibc-minimal-langpack-2.38.9000-8.fc40.s390x gmp-1:6.2.1-5.fc39.s390x gnat-srpm-macros-6-3.fc39.noarch go-srpm-macros-3.2.0-7.fc40.noarch grep-3.11-5.fc40.s390x gzip-1.12-6.fc39.s390x info-7.0.3-3.fc39.s390x jansson-2.13.1-7.fc39.s390x kernel-srpm-macros-1.0-20.fc39.noarch keyutils-libs-1.6.1-7.fc39.s390x krb5-libs-1.21.2-1.fc40.s390x libacl-2.3.1-9.fc40.s390x libarchive-3.7.2-1.fc40.s390x libattr-2.5.1-9.fc40.s390x libblkid-2.39.2-1.fc40.s390x libbrotli-1.1.0-1.fc40.s390x libcap-2.48-7.fc39.s390x libcap-ng-0.8.3-8.fc40.s390x libcom_err-1.47.0-2.fc39.s390x libcurl-8.3.0-1.fc40.s390x libdb-5.3.28-58.fc40.s390x libeconf-0.5.2-1.fc40.s390x libevent-2.1.12-9.fc39.s390x libfdisk-2.39.2-1.fc40.s390x libffi-3.4.4-4.fc39.s390x libgcc-13.2.1-1.fc40.s390x libgomp-13.2.1-1.fc40.s390x libidn2-2.3.4-3.fc39.s390x libmount-2.39.2-1.fc40.s390x libnghttp2-1.56.0-1.fc40.s390x libnsl2-2.0.0-6.fc39.s390x libpkgconf-1.9.5-2.fc39.s390x libpsl-0.21.2-4.fc39.s390x libpwquality-1.4.5-6.fc39.s390x libselinux-3.5-5.fc39.s390x libsemanage-3.5-4.fc39.s390x libsepol-3.5-2.fc39.s390x libsigsegv-2.14-5.fc39.s390x libsmartcols-2.39.2-1.fc40.s390x libssh-0.10.5-2.fc39.s390x libssh-config-0.10.5-2.fc39.noarch libstdc++-13.2.1-1.fc40.s390x libtasn1-4.19.0-3.fc39.s390x libtirpc-1.3.3-1.rc2.fc39.s390x libunistring-1.1-5.fc40.s390x libutempter-1.2.1-10.fc39.s390x libuuid-2.39.2-1.fc40.s390x libverto-0.3.2-6.fc39.s390x libxcrypt-4.4.36-2.fc39.s390x libxml2-2.11.5-1.fc40.s390x libzstd-1.5.5-4.fc40.s390x lua-libs-5.4.6-3.fc39.s390x lua-srpm-macros-1-9.fc39.noarch lz4-libs-1.9.4-4.fc39.s390x mpfr-4.2.0-3.fc39.s390x ncurses-base-6.4-7.20230520.fc40.noarch ncurses-libs-6.4-7.20230520.fc40.s390x ocaml-srpm-macros-8-2.fc39.noarch openblas-srpm-macros-2-14.fc39.noarch openldap-2.6.6-1.fc39.s390x openssl-libs-1:3.1.1-4.fc40.s390x p11-kit-0.25.0-2.fc39.s390x p11-kit-trust-0.25.0-2.fc39.s390x package-notes-srpm-macros-0.5-9.fc39.noarch pam-1.5.3-2.fc39.s390x pam-libs-1.5.3-2.fc39.s390x patch-2.7.6-22.fc39.s390x pcre2-10.42-1.fc39.2.s390x pcre2-syntax-10.42-1.fc39.2.noarch perl-srpm-macros-1-51.fc39.noarch pkgconf-1.9.5-2.fc39.s390x pkgconf-m4-1.9.5-2.fc39.noarch pkgconf-pkg-config-1.9.5-2.fc39.s390x popt-1.19-3.fc39.s390x publicsuffix-list-dafsa-20230812-1.fc40.noarch pyproject-srpm-macros-1.9.0-2.fc39.noarch python-srpm-macros-3.12-4.fc40.noarch qt5-srpm-macros-5.15.10-2.fc39.noarch qt6-srpm-macros-6.5.2-2.fc39.noarch readline-8.2-4.fc39.s390x redhat-rpm-config-270-1.fc40.noarch rpm-4.18.99-1.fc40.s390x rpm-build-4.18.99-1.fc40.s390x rpm-build-libs-4.18.99-1.fc40.s390x rpm-libs-4.18.99-1.fc40.s390x rpm-sequoia-1.5.0-1.fc40.s390x rust-srpm-macros-24-5.fc40.noarch sed-4.8-14.fc39.s390x setup-2.14.4-1.fc39.noarch shadow-utils-2:4.14.0-1.fc40.s390x sqlite-libs-3.43.1-1.fc40.s390x systemd-libs-254.1-2.fc40.s390x tar-2:1.35-2.fc40.s390x tzdata-2023c-3.fc40.noarch unzip-6.0-62.fc39.s390x util-linux-2.39.2-1.fc40.s390x util-linux-core-2.39.2-1.fc40.s390x which-2.21-40.fc39.s390x xxhash-libs-0.8.2-1.fc39.s390x xz-5.4.4-1.fc39.s390x xz-libs-5.4.4-1.fc39.s390x zip-3.0-38.fc39.s390x zlib-ng-compat-2.1.3-3.fc40.s390x zstd-1.5.5-4.fc40.s390x Complete! Finish: installing minimal buildroot with dnf Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: alternatives-1.25-1.fc39.s390x ansible-srpm-macros-1-11.fc39.noarch audit-libs-3.1.2-4.fc40.s390x authselect-1.4.2-3.fc39.s390x authselect-libs-1.4.2-3.fc39.s390x basesystem-11-18.fc39.noarch bash-5.2.15-5.fc39.s390x binutils-2.41-5.fc40.s390x binutils-gold-2.41-5.fc40.s390x bzip2-1.0.8-16.fc39.s390x bzip2-libs-1.0.8-16.fc39.s390x ca-certificates-2023.2.60_v7.0.306-3.fc40.noarch coreutils-9.4-1.fc40.s390x coreutils-common-9.4-1.fc40.s390x cpio-2.14-4.fc39.s390x cracklib-2.9.11-2.fc40.s390x crypto-policies-20230731-1.git5ed06e0.fc39.noarch curl-8.3.0-1.fc40.s390x cyrus-sasl-lib-2.1.28-11.fc39.s390x debugedit-5.0-10.fc39.s390x diffutils-3.10-3.fc39.s390x dwz-0.15-3.fc39.s390x ed-1.19-4.fc39.s390x efi-srpm-macros-5-9.fc39.noarch elfutils-0.189-6.fc40.s390x elfutils-debuginfod-client-0.189-6.fc40.s390x elfutils-default-yama-scope-0.189-6.fc40.noarch elfutils-libelf-0.189-6.fc40.s390x elfutils-libs-0.189-6.fc40.s390x fedora-gpg-keys-40-0.1.noarch fedora-release-40-0.7.noarch fedora-release-common-40-0.7.noarch fedora-release-identity-basic-40-0.7.noarch fedora-repos-40-0.1.noarch fedora-repos-rawhide-40-0.1.noarch file-5.45-1.fc40.s390x file-libs-5.45-1.fc40.s390x filesystem-3.18-6.fc39.s390x findutils-4.9.0-6.fc40.s390x fonts-srpm-macros-2.0.5-12.fc39.noarch forge-srpm-macros-0.1.0-1.fc40.noarch fpc-srpm-macros-1.3-8.fc39.noarch gawk-5.2.2-2.fc39.s390x gdb-minimal-13.2-8.fc40.s390x gdbm-libs-1.23-4.fc39.s390x ghc-srpm-macros-1.6.1-2.fc39.noarch glibc-2.38.9000-8.fc40.s390x glibc-common-2.38.9000-8.fc40.s390x glibc-gconv-extra-2.38.9000-8.fc40.s390x glibc-minimal-langpack-2.38.9000-8.fc40.s390x gmp-6.2.1-5.fc39.s390x gnat-srpm-macros-6-3.fc39.noarch go-srpm-macros-3.2.0-7.fc40.noarch gpg-pubkey-18b8e74c-62f2920f gpg-pubkey-a15b79cc-63d04c2c grep-3.11-5.fc40.s390x gzip-1.12-6.fc39.s390x info-7.0.3-3.fc39.s390x jansson-2.13.1-7.fc39.s390x kernel-srpm-macros-1.0-20.fc39.noarch keyutils-libs-1.6.1-7.fc39.s390x krb5-libs-1.21.2-1.fc40.s390x libacl-2.3.1-9.fc40.s390x libarchive-3.7.2-1.fc40.s390x libattr-2.5.1-9.fc40.s390x libblkid-2.39.2-1.fc40.s390x libbrotli-1.1.0-1.fc40.s390x libcap-2.48-7.fc39.s390x libcap-ng-0.8.3-8.fc40.s390x libcom_err-1.47.0-2.fc39.s390x libcurl-8.3.0-1.fc40.s390x libdb-5.3.28-58.fc40.s390x libeconf-0.5.2-1.fc40.s390x libevent-2.1.12-9.fc39.s390x libfdisk-2.39.2-1.fc40.s390x libffi-3.4.4-4.fc39.s390x libgcc-13.2.1-1.fc40.s390x libgomp-13.2.1-1.fc40.s390x libidn2-2.3.4-3.fc39.s390x libmount-2.39.2-1.fc40.s390x libnghttp2-1.56.0-1.fc40.s390x libnsl2-2.0.0-6.fc39.s390x libpkgconf-1.9.5-2.fc39.s390x libpsl-0.21.2-4.fc39.s390x libpwquality-1.4.5-6.fc39.s390x libselinux-3.5-5.fc39.s390x libsemanage-3.5-4.fc39.s390x libsepol-3.5-2.fc39.s390x libsigsegv-2.14-5.fc39.s390x libsmartcols-2.39.2-1.fc40.s390x libssh-0.10.5-2.fc39.s390x libssh-config-0.10.5-2.fc39.noarch libstdc++-13.2.1-1.fc40.s390x libtasn1-4.19.0-3.fc39.s390x libtirpc-1.3.3-1.rc2.fc39.s390x libunistring-1.1-5.fc40.s390x libutempter-1.2.1-10.fc39.s390x libuuid-2.39.2-1.fc40.s390x libverto-0.3.2-6.fc39.s390x libxcrypt-4.4.36-2.fc39.s390x libxml2-2.11.5-1.fc40.s390x libzstd-1.5.5-4.fc40.s390x lua-libs-5.4.6-3.fc39.s390x lua-srpm-macros-1-9.fc39.noarch lz4-libs-1.9.4-4.fc39.s390x mpfr-4.2.0-3.fc39.s390x ncurses-base-6.4-7.20230520.fc40.noarch ncurses-libs-6.4-7.20230520.fc40.s390x ocaml-srpm-macros-8-2.fc39.noarch openblas-srpm-macros-2-14.fc39.noarch openldap-2.6.6-1.fc39.s390x openssl-libs-3.1.1-4.fc40.s390x p11-kit-0.25.0-2.fc39.s390x p11-kit-trust-0.25.0-2.fc39.s390x package-notes-srpm-macros-0.5-9.fc39.noarch pam-1.5.3-2.fc39.s390x pam-libs-1.5.3-2.fc39.s390x patch-2.7.6-22.fc39.s390x pcre2-10.42-1.fc39.2.s390x pcre2-syntax-10.42-1.fc39.2.noarch perl-srpm-macros-1-51.fc39.noarch pkgconf-1.9.5-2.fc39.s390x pkgconf-m4-1.9.5-2.fc39.noarch pkgconf-pkg-config-1.9.5-2.fc39.s390x popt-1.19-3.fc39.s390x publicsuffix-list-dafsa-20230812-1.fc40.noarch pyproject-srpm-macros-1.9.0-2.fc39.noarch python-srpm-macros-3.12-4.fc40.noarch qt5-srpm-macros-5.15.10-2.fc39.noarch qt6-srpm-macros-6.5.2-2.fc39.noarch readline-8.2-4.fc39.s390x redhat-rpm-config-270-1.fc40.noarch rpm-4.18.99-1.fc40.s390x rpm-build-4.18.99-1.fc40.s390x rpm-build-libs-4.18.99-1.fc40.s390x rpm-libs-4.18.99-1.fc40.s390x rpm-sequoia-1.5.0-1.fc40.s390x rust-srpm-macros-24-5.fc40.noarch sed-4.8-14.fc39.s390x setup-2.14.4-1.fc39.noarch shadow-utils-4.14.0-1.fc40.s390x sqlite-libs-3.43.1-1.fc40.s390x systemd-libs-254.1-2.fc40.s390x tar-1.35-2.fc40.s390x tzdata-2023c-3.fc40.noarch unzip-6.0-62.fc39.s390x util-linux-2.39.2-1.fc40.s390x util-linux-core-2.39.2-1.fc40.s390x which-2.21-40.fc39.s390x xxhash-libs-0.8.2-1.fc39.s390x xz-5.4.4-1.fc39.s390x xz-libs-5.4.4-1.fc39.s390x zip-3.0-38.fc39.s390x zlib-ng-compat-2.1.3-3.fc40.s390x zstd-1.5.5-4.fc40.s390x Start: buildsrpm Start: rpmbuild -bs Building target platforms: s390x Building for target s390x setting SOURCE_DATE_EPOCH=1693872000 Wrote: /builddir/build/SRPMS/python-pysam-0.21.0-2.fc40.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-s390x-1694975550.734558/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-s390x-1694975550.734558/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-s390x-1694975550.734558/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-8x23x416/python-pysam/python-pysam.spec) Config(child) 1 minutes 23 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/python-pysam-0.21.0-2.fc40.src.rpm) Config(fedora-rawhide-s390x) Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-s390x-bootstrap-1694975550.734558/root. INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-s390x-bootstrap-1694975550.734558/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-s390x-1694975550.734558/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 Finish: chroot init INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.18.99-1.fc40.s390x rpm-sequoia-1.5.0-1.fc40.s390x python3-dnf-4.16.2-4.fc40.noarch python3-dnf-plugins-core-4.4.2-1.fc39.noarch yum-4.16.2-4.fc40.noarch Start: build phase for python-pysam-0.21.0-2.fc40.src.rpm Start: build setup for python-pysam-0.21.0-2.fc40.src.rpm Building target platforms: s390x Building for target s390x setting SOURCE_DATE_EPOCH=1693872000 Wrote: /builddir/build/SRPMS/python-pysam-0.21.0-2.fc40.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 276 B/s | 1.5 kB 00:05 Copr repository 356 kB/s | 1.8 MB 00:05 fedora 7.1 kB/s | 5.5 kB 00:00 Dependencies resolved. ========================================================================================= Package Arch Version Repo Size ========================================================================================= Installing: bzip2-devel s390x 1.0.8-16.fc39 fedora 214 k gcc s390x 13.2.1-1.fc40 copr_base 28 M python3-cython s390x 3.0.2-1.fc40 fedora 3.9 M python3-devel s390x 3.12.0~rc2-1.fc40 fedora 311 k python3-setuptools noarch 67.7.2-7.fc40 fedora 1.5 M python3-sphinx noarch 1:7.1.2-1.fc40 fedora 2.6 M xz-devel s390x 5.4.4-1.fc39 fedora 66 k zlib-ng-compat-devel s390x 2.1.3-3.fc40 copr_base 34 k Installing dependencies: annobin-docs noarch 12.26-1.fc40 fedora 94 k annobin-plugin-gcc s390x 12.26-1.fc40 fedora 958 k cpp s390x 13.2.1-1.fc40 copr_base 8.8 M expat s390x 2.5.0-3.fc39 fedora 114 k gc s390x 8.2.2-4.fc39 fedora 114 k gcc-plugin-annobin s390x 13.2.1-1.fc40 copr_base 46 k glibc-devel s390x 2.38.9000-8.fc40 copr_base 96 k glibc-headers-s390 noarch 2.38.9000-8.fc40 copr_base 489 k guile22 s390x 2.2.7-9.fc39 fedora 6.5 M kernel-headers s390x 6.6.0-0.rc1.git0.1.fc40 fedora 1.5 M libasan s390x 13.2.1-1.fc40 copr_base 507 k libatomic s390x 13.2.1-1.fc40 copr_base 34 k libb2 s390x 0.98.1-9.fc39 fedora 27 k libmpc s390x 1.3.1-3.fc39 fedora 73 k libtool-ltdl s390x 2.4.7-8.fc40 fedora 37 k libubsan s390x 13.2.1-1.fc40 copr_base 219 k libxcrypt-devel s390x 4.4.36-2.fc39 fedora 30 k make s390x 1:4.4.1-2.fc39 fedora 605 k mpdecimal s390x 2.5.1-7.fc39 fedora 100 k pyproject-rpm-macros noarch 1.9.0-2.fc39 fedora 41 k python-pip-wheel noarch 23.2.1-1.fc39 fedora 1.5 M python-rpm-macros noarch 3.12-4.fc40 fedora 19 k python3 s390x 3.12.0~rc2-1.fc40 fedora 26 k python3-babel noarch 2.12.1-4.fc39~bootstrap fedora 6.9 M python3-charset-normalizer noarch 3.2.0-2.fc39 fedora 105 k python3-docutils noarch 0.20.1-1.fc40 fedora 1.0 M python3-idna noarch 3.4-5.fc40 fedora 109 k python3-imagesize noarch 1.4.1-5.fc40 fedora 22 k python3-jinja2 noarch 3.1.2-6.fc40 fedora 505 k python3-libs s390x 3.12.0~rc2-1.fc40 fedora 9.2 M python3-markupsafe s390x 2.1.3-2.fc39 fedora 30 k python3-packaging noarch 23.1-5.fc40 fedora 115 k python3-pygments noarch 2.16.1-1.fc40 fedora 2.4 M python3-pysocks noarch 1.7.1-20.fc39 fedora 39 k python3-requests noarch 2.28.2-6.fc40 fedora 151 k python3-rpm-generators noarch 14-7.fc39 fedora 30 k python3-rpm-macros noarch 3.12-4.fc40 fedora 14 k python3-snowballstemmer noarch 2.2.0-7.fc39 fedora 257 k python3-sphinx-theme-alabaster noarch 0.7.12-19.fc39 fedora 29 k python3-sphinxcontrib-applehelp noarch 1.0.6-1.fc40 fedora 45 k python3-sphinxcontrib-devhelp noarch 1.0.2-14.fc39 fedora 41 k python3-sphinxcontrib-htmlhelp noarch 2.0.3-1.fc40 fedora 54 k python3-sphinxcontrib-jsmath noarch 1.0.1-22.fc39 fedora 17 k python3-sphinxcontrib-qthelp noarch 1.0.3-15.fc39 fedora 47 k python3-sphinxcontrib-serializinghtml noarch 1.1.5-10.fc39 fedora 47 k python3-urllib3 noarch 1.26.16-3.fc40 fedora 273 k python3-urllib3+socks noarch 1.26.16-3.fc40 fedora 9.9 k Transaction Summary ========================================================================================= Install 55 Packages Total size: 80 M Total download size: 19 M Installed size: 287 M Downloading Packages: [SKIPPED] cpp-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] gcc-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] gcc-plugin-annobin-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] glibc-devel-2.38.9000-8.fc40.s390x.rpm: Already downloaded [SKIPPED] glibc-headers-s390-2.38.9000-8.fc40.noarch.rpm: Already downloaded [SKIPPED] libasan-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] libatomic-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] libubsan-13.2.1-1.fc40.s390x.rpm: Already downloaded [SKIPPED] zlib-ng-compat-devel-2.1.3-3.fc40.s390x.rpm: Already downloaded [SKIPPED] annobin-docs-12.26-1.fc40.noarch.rpm: Already downloaded [SKIPPED] annobin-plugin-gcc-12.26-1.fc40.s390x.rpm: Already downloaded [SKIPPED] expat-2.5.0-3.fc39.s390x.rpm: Already downloaded [SKIPPED] gc-8.2.2-4.fc39.s390x.rpm: Already downloaded [SKIPPED] guile22-2.2.7-9.fc39.s390x.rpm: Already downloaded [SKIPPED] kernel-headers-6.6.0-0.rc1.git0.1.fc40.s390x.rpm: Already downloaded [SKIPPED] libb2-0.98.1-9.fc39.s390x.rpm: Already downloaded [SKIPPED] libmpc-1.3.1-3.fc39.s390x.rpm: Already downloaded [SKIPPED] libtool-ltdl-2.4.7-8.fc40.s390x.rpm: Already downloaded [SKIPPED] libxcrypt-devel-4.4.36-2.fc39.s390x.rpm: Already downloaded [SKIPPED] make-4.4.1-2.fc39.s390x.rpm: Already downloaded [SKIPPED] mpdecimal-2.5.1-7.fc39.s390x.rpm: Already downloaded [SKIPPED] pyproject-rpm-macros-1.9.0-2.fc39.noarch.rpm: Already downloaded [SKIPPED] python-pip-wheel-23.2.1-1.fc39.noarch.rpm: Already downloaded [SKIPPED] python-rpm-macros-3.12-4.fc40.noarch.rpm: Already downloaded [SKIPPED] python3-3.12.0~rc2-1.fc40.s390x.rpm: Already downloaded [SKIPPED] python3-devel-3.12.0~rc2-1.fc40.s390x.rpm: Already downloaded [SKIPPED] python3-libs-3.12.0~rc2-1.fc40.s390x.rpm: Already downloaded [SKIPPED] python3-packaging-23.1-5.fc40.noarch.rpm: Already downloaded [SKIPPED] python3-rpm-generators-14-7.fc39.noarch.rpm: Already downloaded [SKIPPED] python3-rpm-macros-3.12-4.fc40.noarch.rpm: Already downloaded [SKIPPED] python3-setuptools-67.7.2-7.fc40.noarch.rpm: Already downloaded (32/55): python3-charset-normalizer-3.2.0-2.fc3 106 kB/s | 105 kB 00:00 (33/55): bzip2-devel-1.0.8-16.fc39.s390x.rpm 190 kB/s | 214 kB 00:01 (34/55): python3-docutils-0.20.1-1.fc40.noarch. 1.5 MB/s | 1.0 MB 00:00 (35/55): python3-idna-3.4-5.fc40.noarch.rpm 532 kB/s | 109 kB 00:00 (36/55): python3-babel-2.12.1-4.fc39~bootstrap. 3.1 MB/s | 6.9 MB 00:02 (37/55): python3-imagesize-1.4.1-5.fc40.noarch. 100 kB/s | 22 kB 00:00 (38/55): python3-cython-3.0.2-1.fc40.s390x.rpm 3.0 MB/s | 3.9 MB 00:01 (39/55): python3-markupsafe-2.1.3-2.fc39.s390x. 147 kB/s | 30 kB 00:00 (40/55): python3-jinja2-3.1.2-6.fc40.noarch.rpm 1.9 MB/s | 505 kB 00:00 (41/55): python3-pygments-2.16.1-1.fc40.noarch. 8.4 MB/s | 2.4 MB 00:00 (42/55): python3-pysocks-1.7.1-20.fc39.noarch.r 192 kB/s | 39 kB 00:00 (43/55): python3-requests-2.28.2-6.fc40.noarch. 715 kB/s | 151 kB 00:00 (44/55): python3-snowballstemmer-2.2.0-7.fc39.n 1.2 MB/s | 257 kB 00:00 (45/55): python3-sphinx-theme-alabaster-0.7.12- 149 kB/s | 29 kB 00:00 (46/55): python3-sphinx-7.1.2-1.fc40.noarch.rpm 9.5 MB/s | 2.6 MB 00:00 (47/55): python3-sphinxcontrib-applehelp-1.0.6- 220 kB/s | 45 kB 00:00 (48/55): python3-sphinxcontrib-devhelp-1.0.2-14 211 kB/s | 41 kB 00:00 (49/55): python3-sphinxcontrib-htmlhelp-2.0.3-1 275 kB/s | 54 kB 00:00 (50/55): python3-sphinxcontrib-jsmath-1.0.1-22. 85 kB/s | 17 kB 00:00 (51/55): python3-sphinxcontrib-qthelp-1.0.3-15. 243 kB/s | 47 kB 00:00 (52/55): python3-sphinxcontrib-serializinghtml- 230 kB/s | 47 kB 00:00 (53/55): python3-urllib3+socks-1.26.16-3.fc40.n 49 kB/s | 9.9 kB 00:00 (54/55): python3-urllib3-1.26.16-3.fc40.noarch. 1.2 MB/s | 273 kB 00:00 (55/55): xz-devel-5.4.4-1.fc39.s390x.rpm 321 kB/s | 66 kB 00:00 -------------------------------------------------------------------------------- Total 4.3 MB/s | 19 MB 00:04 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Preparing : 1/1 Installing : python-rpm-macros-3.12-4.fc40.noarch 1/55 Installing : python3-rpm-macros-3.12-4.fc40.noarch 2/55 Installing : libmpc-1.3.1-3.fc39.s390x 3/55 Installing : cpp-13.2.1-1.fc40.s390x 4/55 Installing : pyproject-rpm-macros-1.9.0-2.fc39.noarch 5/55 Installing : python-pip-wheel-23.2.1-1.fc39.noarch 6/55 Installing : mpdecimal-2.5.1-7.fc39.s390x 7/55 Installing : libtool-ltdl-2.4.7-8.fc40.s390x 8/55 Installing : libb2-0.98.1-9.fc39.s390x 9/55 Installing : kernel-headers-6.6.0-0.rc1.git0.1.fc40.s390x 10/55 Installing : gc-8.2.2-4.fc39.s390x 11/55 Installing : guile22-2.2.7-9.fc39.s390x 12/55 Installing : make-1:4.4.1-2.fc39.s390x 13/55 Installing : expat-2.5.0-3.fc39.s390x 14/55 Installing : python3-3.12.0~rc2-1.fc40.s390x 15/55 Installing : python3-libs-3.12.0~rc2-1.fc40.s390x 16/55 Installing : python3-idna-3.4-5.fc40.noarch 17/55 Installing : python3-packaging-23.1-5.fc40.noarch 18/55 Installing : python3-rpm-generators-14-7.fc39.noarch 19/55 Installing : python3-babel-2.12.1-4.fc39~bootstrap.noarch 20/55 Installing : python3-charset-normalizer-3.2.0-2.fc39.noarch 21/55 Installing : python3-docutils-0.20.1-1.fc40.noarch 22/55 Installing : python3-imagesize-1.4.1-5.fc40.noarch 23/55 Installing : python3-markupsafe-2.1.3-2.fc39.s390x 24/55 Installing : python3-jinja2-3.1.2-6.fc40.noarch 25/55 Installing : python3-pygments-2.16.1-1.fc40.noarch 26/55 Installing : python3-pysocks-1.7.1-20.fc39.noarch 27/55 Installing : python3-urllib3+socks-1.26.16-3.fc40.noarch 28/55 Installing : python3-urllib3-1.26.16-3.fc40.noarch 29/55 Installing : python3-requests-2.28.2-6.fc40.noarch 30/55 Installing : python3-snowballstemmer-2.2.0-7.fc39.noarch 31/55 Installing : python3-sphinx-theme-alabaster-0.7.12-19.fc39.noar 32/55 Installing : python3-sphinxcontrib-devhelp-1.0.2-14.fc39.noarch 33/55 Installing : python3-sphinxcontrib-jsmath-1.0.1-22.fc39.noarch 34/55 Installing : python3-sphinxcontrib-qthelp-1.0.3-15.fc39.noarch 35/55 Installing : python3-sphinxcontrib-serializinghtml-1.1.5-10.fc3 36/55 Installing : python3-sphinxcontrib-applehelp-1.0.6-1.fc40.noarc 37/55 Installing : python3-sphinxcontrib-htmlhelp-2.0.3-1.fc40.noarch 38/55 Installing : python3-sphinx-1:7.1.2-1.fc40.noarch 39/55 Installing : annobin-docs-12.26-1.fc40.noarch 40/55 Installing : libubsan-13.2.1-1.fc40.s390x 41/55 Installing : libatomic-13.2.1-1.fc40.s390x 42/55 Installing : libasan-13.2.1-1.fc40.s390x 43/55 Installing : glibc-headers-s390-2.38.9000-8.fc40.noarch 44/55 Installing : libxcrypt-devel-4.4.36-2.fc39.s390x 45/55 Installing : glibc-devel-2.38.9000-8.fc40.s390x 46/55 Installing : gcc-13.2.1-1.fc40.s390x 47/55 Running scriptlet: gcc-13.2.1-1.fc40.s390x 47/55 Installing : gcc-plugin-annobin-13.2.1-1.fc40.s390x 48/55 Running scriptlet: gcc-plugin-annobin-13.2.1-1.fc40.s390x 48/55 Installing : annobin-plugin-gcc-12.26-1.fc40.s390x 49/55 Running scriptlet: annobin-plugin-gcc-12.26-1.fc40.s390x 49/55 Installing : python3-devel-3.12.0~rc2-1.fc40.s390x 50/55 Installing : python3-cython-3.0.2-1.fc40.s390x 51/55 Installing : python3-setuptools-67.7.2-7.fc40.noarch 52/55 Installing : xz-devel-5.4.4-1.fc39.s390x 53/55 Installing : bzip2-devel-1.0.8-16.fc39.s390x 54/55 Installing : zlib-ng-compat-devel-2.1.3-3.fc40.s390x 55/55 Running scriptlet: zlib-ng-compat-devel-2.1.3-3.fc40.s390x 55/55 Verifying : cpp-13.2.1-1.fc40.s390x 1/55 Verifying : gcc-13.2.1-1.fc40.s390x 2/55 Verifying : gcc-plugin-annobin-13.2.1-1.fc40.s390x 3/55 Verifying : glibc-devel-2.38.9000-8.fc40.s390x 4/55 Verifying : glibc-headers-s390-2.38.9000-8.fc40.noarch 5/55 Verifying : libasan-13.2.1-1.fc40.s390x 6/55 Verifying : libatomic-13.2.1-1.fc40.s390x 7/55 Verifying : libubsan-13.2.1-1.fc40.s390x 8/55 Verifying : zlib-ng-compat-devel-2.1.3-3.fc40.s390x 9/55 Verifying : annobin-docs-12.26-1.fc40.noarch 10/55 Verifying : annobin-plugin-gcc-12.26-1.fc40.s390x 11/55 Verifying : bzip2-devel-1.0.8-16.fc39.s390x 12/55 Verifying : expat-2.5.0-3.fc39.s390x 13/55 Verifying : gc-8.2.2-4.fc39.s390x 14/55 Verifying : guile22-2.2.7-9.fc39.s390x 15/55 Verifying : kernel-headers-6.6.0-0.rc1.git0.1.fc40.s390x 16/55 Verifying : libb2-0.98.1-9.fc39.s390x 17/55 Verifying : libmpc-1.3.1-3.fc39.s390x 18/55 Verifying : libtool-ltdl-2.4.7-8.fc40.s390x 19/55 Verifying : libxcrypt-devel-4.4.36-2.fc39.s390x 20/55 Verifying : make-1:4.4.1-2.fc39.s390x 21/55 Verifying : mpdecimal-2.5.1-7.fc39.s390x 22/55 Verifying : pyproject-rpm-macros-1.9.0-2.fc39.noarch 23/55 Verifying : python-pip-wheel-23.2.1-1.fc39.noarch 24/55 Verifying : python-rpm-macros-3.12-4.fc40.noarch 25/55 Verifying : python3-3.12.0~rc2-1.fc40.s390x 26/55 Verifying : python3-babel-2.12.1-4.fc39~bootstrap.noarch 27/55 Verifying : python3-charset-normalizer-3.2.0-2.fc39.noarch 28/55 Verifying : python3-cython-3.0.2-1.fc40.s390x 29/55 Verifying : python3-devel-3.12.0~rc2-1.fc40.s390x 30/55 Verifying : python3-docutils-0.20.1-1.fc40.noarch 31/55 Verifying : python3-idna-3.4-5.fc40.noarch 32/55 Verifying : python3-imagesize-1.4.1-5.fc40.noarch 33/55 Verifying : python3-jinja2-3.1.2-6.fc40.noarch 34/55 Verifying : python3-libs-3.12.0~rc2-1.fc40.s390x 35/55 Verifying : python3-markupsafe-2.1.3-2.fc39.s390x 36/55 Verifying : python3-packaging-23.1-5.fc40.noarch 37/55 Verifying : python3-pygments-2.16.1-1.fc40.noarch 38/55 Verifying : python3-pysocks-1.7.1-20.fc39.noarch 39/55 Verifying : python3-requests-2.28.2-6.fc40.noarch 40/55 Verifying : python3-rpm-generators-14-7.fc39.noarch 41/55 Verifying : python3-rpm-macros-3.12-4.fc40.noarch 42/55 Verifying : python3-setuptools-67.7.2-7.fc40.noarch 43/55 Verifying : python3-snowballstemmer-2.2.0-7.fc39.noarch 44/55 Verifying : python3-sphinx-1:7.1.2-1.fc40.noarch 45/55 Verifying : python3-sphinx-theme-alabaster-0.7.12-19.fc39.noar 46/55 Verifying : python3-sphinxcontrib-applehelp-1.0.6-1.fc40.noarc 47/55 Verifying : python3-sphinxcontrib-devhelp-1.0.2-14.fc39.noarch 48/55 Verifying : python3-sphinxcontrib-htmlhelp-2.0.3-1.fc40.noarch 49/55 Verifying : python3-sphinxcontrib-jsmath-1.0.1-22.fc39.noarch 50/55 Verifying : python3-sphinxcontrib-qthelp-1.0.3-15.fc39.noarch 51/55 Verifying : python3-sphinxcontrib-serializinghtml-1.1.5-10.fc3 52/55 Verifying : python3-urllib3+socks-1.26.16-3.fc40.noarch 53/55 Verifying : python3-urllib3-1.26.16-3.fc40.noarch 54/55 Verifying : xz-devel-5.4.4-1.fc39.s390x 55/55 Installed: annobin-docs-12.26-1.fc40.noarch annobin-plugin-gcc-12.26-1.fc40.s390x bzip2-devel-1.0.8-16.fc39.s390x cpp-13.2.1-1.fc40.s390x expat-2.5.0-3.fc39.s390x gc-8.2.2-4.fc39.s390x gcc-13.2.1-1.fc40.s390x gcc-plugin-annobin-13.2.1-1.fc40.s390x glibc-devel-2.38.9000-8.fc40.s390x glibc-headers-s390-2.38.9000-8.fc40.noarch guile22-2.2.7-9.fc39.s390x kernel-headers-6.6.0-0.rc1.git0.1.fc40.s390x libasan-13.2.1-1.fc40.s390x libatomic-13.2.1-1.fc40.s390x libb2-0.98.1-9.fc39.s390x libmpc-1.3.1-3.fc39.s390x libtool-ltdl-2.4.7-8.fc40.s390x libubsan-13.2.1-1.fc40.s390x libxcrypt-devel-4.4.36-2.fc39.s390x make-1:4.4.1-2.fc39.s390x mpdecimal-2.5.1-7.fc39.s390x pyproject-rpm-macros-1.9.0-2.fc39.noarch python-pip-wheel-23.2.1-1.fc39.noarch python-rpm-macros-3.12-4.fc40.noarch python3-3.12.0~rc2-1.fc40.s390x python3-babel-2.12.1-4.fc39~bootstrap.noarch python3-charset-normalizer-3.2.0-2.fc39.noarch python3-cython-3.0.2-1.fc40.s390x python3-devel-3.12.0~rc2-1.fc40.s390x python3-docutils-0.20.1-1.fc40.noarch python3-idna-3.4-5.fc40.noarch python3-imagesize-1.4.1-5.fc40.noarch python3-jinja2-3.1.2-6.fc40.noarch python3-libs-3.12.0~rc2-1.fc40.s390x python3-markupsafe-2.1.3-2.fc39.s390x python3-packaging-23.1-5.fc40.noarch python3-pygments-2.16.1-1.fc40.noarch python3-pysocks-1.7.1-20.fc39.noarch python3-requests-2.28.2-6.fc40.noarch python3-rpm-generators-14-7.fc39.noarch python3-rpm-macros-3.12-4.fc40.noarch python3-setuptools-67.7.2-7.fc40.noarch python3-snowballstemmer-2.2.0-7.fc39.noarch python3-sphinx-1:7.1.2-1.fc40.noarch python3-sphinx-theme-alabaster-0.7.12-19.fc39.noarch python3-sphinxcontrib-applehelp-1.0.6-1.fc40.noarch python3-sphinxcontrib-devhelp-1.0.2-14.fc39.noarch python3-sphinxcontrib-htmlhelp-2.0.3-1.fc40.noarch python3-sphinxcontrib-jsmath-1.0.1-22.fc39.noarch python3-sphinxcontrib-qthelp-1.0.3-15.fc39.noarch python3-sphinxcontrib-serializinghtml-1.1.5-10.fc39.noarch python3-urllib3-1.26.16-3.fc40.noarch python3-urllib3+socks-1.26.16-3.fc40.noarch xz-devel-5.4.4-1.fc39.s390x zlib-ng-compat-devel-2.1.3-3.fc40.s390x Complete! Finish: build setup for python-pysam-0.21.0-2.fc40.src.rpm Start: rpmbuild python-pysam-0.21.0-2.fc40.src.rpm Building target platforms: s390x Building for target s390x setting SOURCE_DATE_EPOCH=1693872000 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.heeDh4 + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf pysam-0.21.0 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/pysam-0.21.0.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd pysam-0.21.0 + rm -rf /builddir/build/BUILD/pysam-0.21.0-SPECPARTS + /usr/bin/mkdir -p /builddir/build/BUILD/pysam-0.21.0-SPECPARTS + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + rm -rf pysam.egg-info ++ grep -rl '/\* Generated by Cython' + rm pysam/libcvcf.c pysam/libcutils.c pysam/libctabixproxies.c pysam/libctabix.c pysam/libcsamtools.c pysam/libcsamfile.c pysam/libchtslib.c pysam/libcfaidx.c pysam/libcbgzf.c pysam/libcbcftools.c pysam/libcbcf.c pysam/libcalignmentfile.c pysam/libcalignedsegment.c + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.61I3oD + 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection ' + 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection ' + 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -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 pysam-0.21.0 + FORCE_CYTHON=1 + 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection ' + 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 ' + /usr/bin/python3 setup.py build '--executable=/usr/bin/python3 -sP' /builddir/build/BUILD/pysam-0.21.0/setup.py:435: SyntaxWarning: invalid escape sequence '\S' "#define (\S+)\s+(\S+)", line).groups() # pysam: cython is available - using cythonize if necessary # pysam: htslib mode is shared # pysam: HTSLIB_CONFIGURE_OPTIONS=None # pysam: (env) CC=gcc # pysam: (env) 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC # pysam: (env) 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 checking for gcc... gcc 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 gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for ranlib... ranlib checking for grep that handles long lines and -e... /usr/bin/grep checking for C compiler warning flags... -Wall configure: Default CFLAGS_ARM/X86: -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC checking whether C compiler accepts -mssse3 -mpopcnt -msse4.1... no checking whether C compiler accepts -mavx2... no checking whether C compiler accepts -mavx512f... no checking whether C compiler supports ARM Neon... no checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking shared library type for unknown-Linux... plain .so checking whether the linker supports versioned symbols... no checking whether the compiler accepts -fvisibility=hidden... yes checking how to run the C preprocessor... gcc -E 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 stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... yes checking for getpagesize... yes checking for working mmap... yes checking for gmtime_r... yes checking for fsync... yes checking for drand48... yes checking for srand48_deterministic... no checking whether fdatasync is declared... yes checking for fdatasync... yes checking for library containing log... -lm checking for zlib.h... yes checking for inflate in -lz... yes checking for library containing recv... none required checking for bzlib.h... yes checking for BZ2_bzBuffToBuffCompress in -lbz2... yes checking for lzma.h... yes checking for lzma_easy_buffer_encode in -llzma... yes checking whether htscodecs files are present... yes checking for libdeflate.h... no checking for libdeflate_deflate_compress in -ldeflate... no checking for curl/curl.h... no checking for curl_easy_pause in -lcurl... no checking for curl_easy_init in -lcurl... no configure: error: libcurl library not found Support for HTTPS and other SSL-based URLs requires routines from the libcurl library . Building HTSlib with libcurl enabled requires libcurl development files to be installed on the build machine; you may need to ensure a package such as libcurl4-{gnutls,nss,openssl}-dev (on Debian or Ubuntu Linux) or libcurl-devel (on RPM-based Linux distributions or Cygwin) is installed. Either configure with --disable-libcurl or resolve this error to build HTSlib. checking for gcc... gcc 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 gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for ranlib... ranlib checking for grep that handles long lines and -e... /usr/bin/grep checking for C compiler warning flags... -Wall configure: Default CFLAGS_ARM/X86: -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC checking whether C compiler accepts -mssse3 -mpopcnt -msse4.1... no checking whether C compiler accepts -mavx2... no checking whether C compiler accepts -mavx512f... no checking whether C compiler supports ARM Neon... no checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking shared library type for unknown-Linux... plain .so checking whether the linker supports versioned symbols... no checking whether the compiler accepts -fvisibility=hidden... yes checking how to run the C preprocessor... gcc -E 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 stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... yes checking for getpagesize... yes checking for working mmap... yes checking for gmtime_r... yes checking for fsync... yes checking for drand48... yes checking for srand48_deterministic... no checking whether fdatasync is declared... yes checking for fdatasync... yes checking for library containing log... -lm checking for zlib.h... yes checking for inflate in -lz... yes checking for library containing recv... none required checking for bzlib.h... yes checking for BZ2_bzBuffToBuffCompress in -lbz2... yes checking for lzma.h... yes checking for lzma_easy_buffer_encode in -llzma... yes checking whether htscodecs files are present... yes checking for libdeflate.h... no checking for libdeflate_deflate_compress in -ldeflate... no configure: WARNING: GCS support not enabled: requires libcurl support configure: WARNING: S3 support not enabled: requires libcurl support checking for library containing regcomp... none required checking whether PTHREAD_MUTEX_RECURSIVE is declared... yes configure: creating ./config.status config.status: creating config.mk config.status: creating htslib.pc.tmp config.status: creating config.h config.status: linking htscodecs_bundled.mk to htscodecs.mk # pysam: htslib configure options: --disable-libcurl # pysam: htslib_config HTS_CFLAGS_AVX2= # pysam: htslib_config HTS_CFLAGS_AVX512= # pysam: htslib_config HTS_CFLAGS_SSE4= # pysam: htslib_config HTS_HAVE_NEON= # pysam: htslib_config LIBHTS_OBJS=kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/utils.o # pysam: htslib_config LIBS=-llzma -lbz2 -lz -lm # pysam: htslib_config PLATFORM=default # pysam: config_option: ENABLE_GCS=0 # pysam: config_option: ENABLE_PLUGINS=0 # pysam: config_option: ENABLE_S3=0 # pysam: config_option: HAVE_COMMONCRYPTO=0 # pysam: config_option: HAVE_HMAC=0 # pysam: config_option: HAVE_LIBBZ2=1 # pysam: config_option: HAVE_LIBCURL=0 # pysam: config_option: HAVE_LIBDEFLATE=0 # pysam: config_option: HAVE_LIBLZMA=1 # pysam: config_option: HAVE_MMAP=1 running build running build_py creating build creating build/lib.linux-s390x-cpython-312 creating build/lib.linux-s390x-cpython-312/pysam copying pysam/config.py -> build/lib.linux-s390x-cpython-312/pysam copying pysam/version.py -> build/lib.linux-s390x-cpython-312/pysam copying pysam/utils.py -> build/lib.linux-s390x-cpython-312/pysam copying pysam/samtools.py -> build/lib.linux-s390x-cpython-312/pysam copying pysam/bcftools.py -> build/lib.linux-s390x-cpython-312/pysam copying pysam/__init__.py -> build/lib.linux-s390x-cpython-312/pysam copying pysam/Pileup.py -> build/lib.linux-s390x-cpython-312/pysam creating build/lib.linux-s390x-cpython-312/pysam/include copying pysam/include/__init__.py -> build/lib.linux-s390x-cpython-312/pysam/include running egg_info creating pysam.egg-info writing pysam.egg-info/PKG-INFO writing dependency_links to pysam.egg-info/dependency_links.txt writing requirements to pysam.egg-info/requires.txt writing top-level names to pysam.egg-info/top_level.txt writing manifest file 'pysam.egg-info/SOURCES.txt' reading manifest file 'pysam.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'KNOWN_BUGS' warning: no files found matching 'THANKS' warning: no files found matching 'pysam/libc*.c' no previously-included directories found matching 'tests/' adding license file 'COPYING' adding license file 'AUTHORS' writing manifest file 'pysam.egg-info/SOURCES.txt' /usr/lib/python3.12/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'pysam.include.htslib.cram' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pysam.include.htslib.cram' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pysam.include.htslib.cram' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pysam.include.htslib.cram' to be distributed and are already explicitly excluding 'pysam.include.htslib.cram' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3.12/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'pysam.include.htslib.htscodecs.htscodecs' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pysam.include.htslib.htscodecs.htscodecs' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pysam.include.htslib.htscodecs.htscodecs' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pysam.include.htslib.htscodecs.htscodecs' to be distributed and are already explicitly excluding 'pysam.include.htslib.htscodecs.htscodecs' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3.12/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'pysam.include.htslib.m4' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pysam.include.htslib.m4' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pysam.include.htslib.m4' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pysam.include.htslib.m4' to be distributed and are already explicitly excluding 'pysam.include.htslib.m4' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3.12/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'pysam.include.htslib.os' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pysam.include.htslib.os' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pysam.include.htslib.os' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pysam.include.htslib.os' to be distributed and are already explicitly excluding 'pysam.include.htslib.os' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3.12/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'pysam.include.samtools.lz4' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pysam.include.samtools.lz4' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pysam.include.samtools.lz4' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pysam.include.samtools.lz4' to be distributed and are already explicitly excluding 'pysam.include.samtools.lz4' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) copying pysam/cbcftools_util.h -> build/lib.linux-s390x-cpython-312/pysam copying pysam/csamtools_util.h -> build/lib.linux-s390x-cpython-312/pysam copying pysam/htslib_util.c -> build/lib.linux-s390x-cpython-312/pysam copying pysam/htslib_util.h -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcalignedsegment.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcalignedsegment.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcalignedsegment.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcalignmentfile.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcalignmentfile.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcalignmentfile.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcbcf.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcbcf.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcbcf.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcbcftools.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcbcftools.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcbcftools.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcbgzf.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcbgzf.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcfaidx.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcfaidx.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcfaidx.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libchtslib.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libchtslib.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libchtslib.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcsamfile.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcsamfile.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcsamfile.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcsamtools.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcsamtools.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcsamtools.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libctabix.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libctabix.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libctabix.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libctabixproxies.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libctabixproxies.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libctabixproxies.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcutils.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcutils.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcutils.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcvcf.pxd -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcvcf.pyi -> build/lib.linux-s390x-cpython-312/pysam copying pysam/libcvcf.pyx -> build/lib.linux-s390x-cpython-312/pysam copying pysam/py.typed -> build/lib.linux-s390x-cpython-312/pysam copying pysam/pysam_stream.h -> build/lib.linux-s390x-cpython-312/pysam copying pysam/pysam_util.c -> build/lib.linux-s390x-cpython-312/pysam copying pysam/pysam_util.h -> build/lib.linux-s390x-cpython-312/pysam copying pysam/version.h -> build/lib.linux-s390x-cpython-312/pysam copying pysam/version.pyi -> build/lib.linux-s390x-cpython-312/pysam creating build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/LICENSE -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/README -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/amplicon_stats.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/amplicon_stats.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam2depth.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam2depth.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_addrprg.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_addrprg.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_ampliconclip.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_ampliconclip.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_ampliconclip.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_aux.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_aux.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_cat.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_cat.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_color.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_color.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_consensus.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_consensus.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_fastq.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_fastq.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_flags.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_flags.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_import.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_import.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_index.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_index.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_lpileup.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_lpileup.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_lpileup.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_markdup.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_markdup.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_mate.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_mate.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_md.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_md.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_plbuf.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_plbuf.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_plbuf.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_plcmd.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_plcmd.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_quickcheck.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_quickcheck.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_reheader.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_reheader.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_rmdup.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_rmdup.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_rmdupse.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_rmdupse.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_samples.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_samples.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_sort.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_sort.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_split.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_split.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_stat.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bam_stat.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bamshuf.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bamshuf.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bamtk.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bamtk.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bedcov.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bedcov.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bedidx.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bedidx.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/bedidx.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/consensus_pileup.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/consensus_pileup.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/consensus_pileup.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/coverage.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/coverage.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/cram_size.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/cram_size.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/cut_target.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/cut_target.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/dict.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/dict.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/faidx.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/faidx.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/padding.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/padding.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/phase.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/phase.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/reference.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/reference.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/reset.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/reset.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sam_opts.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sam_opts.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sam_opts.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sam_utils.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sam_utils.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sam_utils.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sam_view.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sam_view.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sample.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sample.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/sample.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/samtools.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/samtools.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/samtools.pysam.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/splaysort.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/stats.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/stats.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/stats_isize.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/stats_isize.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/stats_isize.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/tmp_file.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/tmp_file.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/tmp_file.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools copying samtools/version.sh -> build/lib.linux-s390x-cpython-312/pysam/include/samtools creating build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4 copying samtools/lz4/LICENSE -> build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4 copying samtools/lz4/lz4.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4 copying samtools/lz4/lz4.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4 copying samtools/lz4/lz4.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4 copying samtools/config.h -> build/lib.linux-s390x-cpython-312/pysam/include/samtools creating build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/HMM.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/HMM.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/HMM.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/LICENSE -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/README -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/abuf.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/abuf.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/abuf.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam2bcf.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam2bcf.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam2bcf.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam2bcf_iaux.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam2bcf_iaux.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam2bcf_indel.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam2bcf_indel.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam_sample.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam_sample.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bam_sample.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bcftools.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bcftools.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bcftools.pysam.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bin.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bin.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/bin.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/call.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/ccall.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/ccall.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/cigar_state.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/cols.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/cols.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/cols.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/consensus.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/consensus.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/convert.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/convert.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/convert.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/csq.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/csq.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/dbuf.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/dist.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/dist.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/dist.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/em.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/em.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/extsort.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/extsort.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/extsort.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/filter.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/filter.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/filter.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/gvcf.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/gvcf.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/gvcf.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/hclust.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/hclust.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/hclust.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/hex.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/khash_str2str.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/kheap.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/kmin.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/kmin.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/kmin.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/main.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/main.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/mcall.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/mcall.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/mpileup.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/mpileup.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/mw.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/ploidy.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/ploidy.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/ploidy.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/prob1.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/prob1.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/prob1.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/rbuf.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/read_consensus.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/read_consensus.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/read_consensus.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/regidx.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/regidx.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/regidx.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/reheader.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/reheader.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/smpl_ilist.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/smpl_ilist.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/smpl_ilist.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/str_finder.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/str_finder.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/str_finder.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/tabix.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/tabix.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/tsv2vcf.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/tsv2vcf.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/tsv2vcf.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/utlist.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/variantkey.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfannotate.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfannotate.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfbuf.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfbuf.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfbuf.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfcall.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfcall.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfcnv.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfcnv.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfconcat.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfconcat.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfconvert.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfconvert.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcffilter.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcffilter.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfgtcheck.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfgtcheck.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfhead.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfhead.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfindex.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfindex.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfisec.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfisec.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfmerge.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfmerge.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfnorm.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfnorm.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfplugin.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfplugin.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfquery.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfquery.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfroh.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfroh.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfsom.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfsom.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfsort.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfsort.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfstats.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfstats.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfview.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcfview.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcmp.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcmp.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/vcmp.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/version.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/version.c.pysam.c -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/version.sh -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools copying bcftools/config.h -> build/lib.linux-s390x-cpython-312/pysam/include/bcftools creating build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/LICENSE -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/Makefile -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/README -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/bcf_sr_sort.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/bcf_sr_sort.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/bgzf.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/bgzip.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/builddir_vars.mk.in -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/config.h.in -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/config.mk.in -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/configure -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/configure.ac -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/errmod.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/faidx.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/header.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/header.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hfile.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hfile_gcs.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hfile_internal.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hfile_libcurl.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hfile_s3.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hfile_s3_write.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hts.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hts_expr.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hts_internal.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hts_os.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/hts_time_funcs.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/htscodecs_bundled.mk -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/htscodecs_external.mk -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/htsfile.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/htslib.mk -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/htslib.pc.in -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/htslib_vars.mk -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/kfunc.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/kstring.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/md5.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/multipart.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/plugin.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/probaln.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/realn.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/regidx.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/region.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/sam.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/sam_internal.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/synced_bcf_reader.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/tabix.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/tbx.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/textutils.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/textutils_internal.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/thread_pool.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/thread_pool_internal.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/vcf.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/vcf_sweep.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/vcfutils.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib copying htslib/version.sh -> build/lib.linux-s390x-cpython-312/pysam/include/htslib creating build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_codecs.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_codecs.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_decode.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_decode.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_encode.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_encode.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_external.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_index.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_index.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_io.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_io.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_samtools.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_stats.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_stats.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/cram_structs.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/mFILE.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/mFILE.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/misc.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/open_trace_file.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/open_trace_file.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/os.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/pooled_alloc.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/pooled_alloc.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/string_alloc.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram copying htslib/cram/string_alloc.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram creating build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs creating build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/arith_dynamic.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/arith_dynamic.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/c_range_coder.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/c_simple_model.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/fqzcomp_qual.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/fqzcomp_qual.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/htscodecs.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/htscodecs.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/htscodecs_endian.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/pack.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/pack.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/permute.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/pooled_alloc.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_byte.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static16_int.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static32x16pr.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static32x16pr.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static32x16pr_avx2.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static32x16pr_avx512.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static32x16pr_neon.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static32x16pr_sse4.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static4x16.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_static4x16pr.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rANS_word.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rle.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/rle.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/tokenise_name3.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/tokenise_name3.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/utils.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/utils.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/varint.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/varint2.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs copying htslib/htscodecs/htscodecs/version.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs creating build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4 copying htslib/m4/ax_check_compile_flag.m4 -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4 copying htslib/m4/hts_hide_dynamic_syms.m4 -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4 copying htslib/m4/hts_prog_cc_warnings.m4 -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4 copying htslib/m4/pkg.m4 -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4 creating build/lib.linux-s390x-cpython-312/pysam/include/htslib/os copying htslib/os/lzma_stub.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/os copying htslib/os/rand.c -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/os copying htslib/config.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib creating build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/bgzf.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/cram.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/faidx.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/hfile.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/hts.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/hts_defs.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/hts_endian.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/hts_expr.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/hts_log.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/hts_os.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/kbitset.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/kfunc.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/khash.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/khash_str2int.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/klist.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/knetfile.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/kroundup.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/kseq.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/ksort.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/kstring.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/regidx.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/sam.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/synced_bcf_reader.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/tbx.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/thread_pool.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/vcf.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/vcf_sweep.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib copying htslib/htslib/vcfutils.h -> build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib running build_ext creating htslib/config_vars.h for 'pysam.libchtslib' extension building 'libhts.a' gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o kfunc.o kfunc.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o kstring.o kstring.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o bcf_sr_sort.o bcf_sr_sort.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o bgzf.o bgzf.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o errmod.o errmod.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o faidx.o faidx.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o header.o header.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hfile.o hfile.c echo '#define HTS_VERSION_TEXT "1.17"' > version.h gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hts.o hts.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hts_expr.o hts_expr.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hts_os.o hts_os.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o md5.o md5.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o multipart.o multipart.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o probaln.o probaln.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o realn.o realn.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o regidx.o regidx.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o region.o region.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o sam.o sam.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o synced_bcf_reader.o synced_bcf_reader.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o vcf_sweep.o vcf_sweep.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o tbx.o tbx.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o textutils.o textutils.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o thread_pool.o thread_pool.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o vcf.o vcf.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o vcfutils.o vcfutils.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_codecs.o cram/cram_codecs.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_decode.o cram/cram_decode.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_encode.o cram/cram_encode.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_external.o cram/cram_external.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_index.o cram/cram_index.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_io.o cram/cram_io.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_stats.o cram/cram_stats.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/mFILE.o cram/mFILE.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/open_trace_file.o cram/open_trace_file.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/pooled_alloc.o cram/pooled_alloc.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/string_alloc.o cram/string_alloc.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/arith_dynamic.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/fqzcomp_qual.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/htscodecs.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/pack.o htscodecs/htscodecs/pack.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static4x16pr.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static32x16pr.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rANS_static.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rle.o htscodecs/htscodecs/rle.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/tokenise_name3.c gcc -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/utils.o htscodecs/htscodecs/utils.c ar -rc libhts.a kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/utils.o ranlib libhts.a warning: pysam/libchtslib.pyx:39:0: The 'DEF' statement is deprecated and will be removed in a future Cython version. Consider using global variables, constants, and in-place literals instead. See https://github.com/cython/cython/issues/4310 warning: pysam/libchtslib.pyx:40:0: The 'DEF' statement is deprecated and will be removed in a future Cython version. Consider using global variables, constants, and in-place literals instead. See https://github.com/cython/cython/issues/4310 warning: pysam/libchtslib.pyx:41:0: The 'DEF' statement is deprecated and will be removed in a future Cython version. Consider using global variables, constants, and in-place literals instead. See https://github.com/cython/cython/issues/4310 Compiling pysam/libchtslib.pyx because it changed. [1/1] Cythonizing pysam/libchtslib.pyx building 'pysam.libchtslib' extension creating build/temp.linux-s390x-cpython-312 creating build/temp.linux-s390x-cpython-312/pysam gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/htslib_util.c -o build/temp.linux-s390x-cpython-312/pysam/htslib_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libchtslib.c -o build/temp.linux-s390x-cpython-312/pysam/libchtslib.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/htslib_util.o build/temp.linux-s390x-cpython-312/pysam/libchtslib.o htslib/kfunc.o htslib/kstring.o htslib/bcf_sr_sort.o htslib/bgzf.o htslib/errmod.o htslib/faidx.o htslib/header.o htslib/hfile.o htslib/hts.o htslib/hts_expr.o htslib/hts_os.o htslib/md5.o htslib/multipart.o htslib/probaln.o htslib/realn.o htslib/regidx.o htslib/region.o htslib/sam.o htslib/synced_bcf_reader.o htslib/vcf_sweep.o htslib/tbx.o htslib/textutils.o htslib/thread_pool.o htslib/vcf.o htslib/vcfutils.o htslib/cram/cram_codecs.o htslib/cram/cram_decode.o htslib/cram/cram_encode.o htslib/cram/cram_external.o htslib/cram/cram_index.o htslib/cram/cram_io.o htslib/cram/cram_stats.o htslib/cram/mFILE.o htslib/cram/open_trace_file.o htslib/cram/pooled_alloc.o htslib/cram/string_alloc.o htslib/htscodecs/htscodecs/arith_dynamic.o htslib/htscodecs/htscodecs/fqzcomp_qual.o htslib/htscodecs/htscodecs/htscodecs.o htslib/htscodecs/htscodecs/pack.o htslib/htscodecs/htscodecs/rANS_static4x16pr.o htslib/htscodecs/htscodecs/rANS_static32x16pr.o htslib/htscodecs/htscodecs/rANS_static.o htslib/htscodecs/htscodecs/rle.o htslib/htscodecs/htscodecs/tokenise_name3.o htslib/htscodecs/htscodecs/utils.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -o build/lib.linux-s390x-cpython-312/pysam/libchtslib.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN creating samtools/samtools_config_vars.h for 'pysam.libcsamtools' extension Compiling pysam/libcsamtools.pyx because it changed. [1/1] Cythonizing pysam/libcsamtools.pyx building 'pysam.libcsamtools' extension creating build/temp.linux-s390x-cpython-312/samtools creating build/temp.linux-s390x-cpython-312/samtools/lz4 gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcsamtools.c -o build/temp.linux-s390x-cpython-312/pysam/libcsamtools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/amplicon_stats.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/amplicon_stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam2depth.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam2depth.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_addrprg.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_addrprg.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_ampliconclip.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_ampliconclip.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_aux.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_aux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_cat.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_cat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_color.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_color.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_consensus.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_fastq.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_fastq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_flags.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_flags.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_import.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_import.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_index.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_index.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_lpileup.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_lpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_markdup.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_markdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_mate.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_mate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_md.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_md.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_plbuf.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_plbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_plcmd.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_plcmd.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_quickcheck.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_quickcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_reheader.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_rmdup.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_rmdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_rmdupse.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_rmdupse.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_samples.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_samples.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_sort.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_sort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement samtools/bam_sort.c.pysam.c: In function ‘reverse_complement.isra.0’: samtools/bam_sort.c.pysam.c:2533:16: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 2533 | seq[j] = comp[tmp]; | ~~~~~~~^~~~~~~~~~~ samtools/bam_sort.c.pysam.c:2520:10: note: at offset 2147483647 into destination object ‘seq_’ of size 10000 2520 | char seq_[10000], *seq = seq_; | ^~~~ gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_split.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_split.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bam_stat.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bam_stat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bamshuf.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bamshuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bamtk.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bamtk.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bedcov.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bedcov.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/bedidx.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/bedidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/consensus_pileup.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/consensus_pileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/coverage.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/coverage.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/cram_size.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/cram_size.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/cut_target.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/cut_target.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/dict.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/dict.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/faidx.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/faidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/lz4/lz4.c -o build/temp.linux-s390x-cpython-312/samtools/lz4/lz4.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/padding.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/padding.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/phase.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/phase.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/reference.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/reference.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/reset.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/reset.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/sam_opts.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/sam_opts.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/sam_utils.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/sam_utils.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/sam_view.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/sam_view.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/sample.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/samtools.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/samtools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/stats.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/stats_isize.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/stats_isize.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c samtools/tmp_file.c.pysam.c -o build/temp.linux-s390x-cpython-312/samtools/tmp_file.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcsamtools.o build/temp.linux-s390x-cpython-312/samtools/amplicon_stats.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam2depth.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_addrprg.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_ampliconclip.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_aux.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_cat.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_color.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_consensus.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_fastq.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_flags.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_import.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_index.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_lpileup.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_markdup.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_mate.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_md.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_plbuf.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_plcmd.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_quickcheck.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_reheader.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_rmdup.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_rmdupse.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_samples.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_sort.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_split.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bam_stat.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bamshuf.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bamtk.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bedcov.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/bedidx.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/consensus_pileup.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/coverage.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/cram_size.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/cut_target.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/dict.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/faidx.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/lz4/lz4.o build/temp.linux-s390x-cpython-312/samtools/padding.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/phase.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/reference.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/reset.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/sam_opts.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/sam_utils.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/sam_view.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/sample.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/samtools.pysam.o build/temp.linux-s390x-cpython-312/samtools/stats.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/stats_isize.c.pysam.o build/temp.linux-s390x-cpython-312/samtools/tmp_file.c.pysam.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcsamtools.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN samtools/bam_sort.c.pysam.c: In function ‘reverse_complement.isra’: samtools/bam_sort.c.pysam.c:2533:16: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 2533 | seq[j] = comp[tmp]; | ^ samtools/bam_sort.c.pysam.c:2520:10: note: at offset 2147483647 into destination object ‘seq_’ of size 10000 2520 | char seq_[10000], *seq = seq_; | ^ Compiling pysam/libcbcftools.pyx because it changed. [1/1] Cythonizing pysam/libcbcftools.pyx building 'pysam.libcbcftools' extension creating build/temp.linux-s390x-cpython-312/bcftools gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/HMM.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/HMM.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/abuf.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/abuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/bam2bcf.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/bam2bcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/bam2bcf_iaux.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/bam2bcf_iaux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/bam2bcf_indel.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/bam2bcf_indel.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/bam_sample.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/bam_sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/bcftools.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/bcftools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/bin.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/bin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/ccall.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/ccall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/cols.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/cols.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/consensus.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/convert.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/convert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/csq.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/csq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/dist.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/dist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/em.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/em.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/extsort.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/extsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/filter.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/filter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/gvcf.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/gvcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/hclust.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/hclust.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/kmin.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/kmin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/main.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/main.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/mcall.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/mcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/mpileup.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/mpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/ploidy.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/ploidy.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/prob1.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/prob1.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/read_consensus.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/read_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/regidx.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/regidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/reheader.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/smpl_ilist.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/smpl_ilist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/str_finder.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/str_finder.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/tabix.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/tabix.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/tsv2vcf.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/tsv2vcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfannotate.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfannotate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfbuf.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfcall.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfcnv.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfcnv.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfconcat.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfconcat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfconvert.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfconvert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcffilter.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcffilter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfgtcheck.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfgtcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfhead.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfhead.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfindex.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfindex.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfisec.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfisec.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfmerge.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfmerge.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement bcftools/vcfmerge.c.pysam.c: In function ‘maux_init’: bcftools/vcfmerge.c.pysam.c:751:34: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 751 | ma->gvcf = (gvcf_aux_t*) calloc(ma->n,sizeof(gvcf_aux_t)); // -Walloc-size-larger-than gives a harmless warning caused by signed integer ma->n | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/pysam-0.21.0/htslib/htslib/kstring.h:30, from /builddir/build/BUILD/pysam-0.21.0/htslib/htslib/hts.h:37, from /builddir/build/BUILD/pysam-0.21.0/htslib/htslib/vcf.h:39, from bcftools/vcfmerge.c.pysam.c:35: /usr/include/stdlib.h:675:14: note: in a call to allocation function ‘calloc’ declared here 675 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfnorm.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfnorm.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfplugin.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfplugin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfquery.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfquery.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfroh.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfroh.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfsom.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfsom.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfsort.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfstats.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfstats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcfview.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcfview.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/vcmp.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/vcmp.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c bcftools/version.c.pysam.c -o build/temp.linux-s390x-cpython-312/bcftools/version.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcbcftools.c -o build/temp.linux-s390x-cpython-312/pysam/libcbcftools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/bcftools/HMM.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/abuf.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/bam2bcf.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/bam2bcf_iaux.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/bam2bcf_indel.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/bam_sample.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/bcftools.pysam.o build/temp.linux-s390x-cpython-312/bcftools/bin.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/ccall.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/cols.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/consensus.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/convert.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/csq.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/dist.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/em.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/extsort.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/filter.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/gvcf.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/hclust.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/kmin.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/main.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/mcall.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/mpileup.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/ploidy.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/prob1.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/read_consensus.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/regidx.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/reheader.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/smpl_ilist.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/str_finder.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/tabix.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/tsv2vcf.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfannotate.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfbuf.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfcall.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfcnv.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfconcat.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfconvert.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcffilter.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfgtcheck.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfhead.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfindex.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfisec.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfmerge.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfnorm.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfplugin.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfquery.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfroh.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfsom.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfsort.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfstats.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcfview.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/vcmp.c.pysam.o build/temp.linux-s390x-cpython-312/bcftools/version.c.pysam.o build/temp.linux-s390x-cpython-312/pysam/libcbcftools.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcbcftools.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN bcftools/vcfmerge.c.pysam.c: In function ‘maux_init’: bcftools/vcfmerge.c.pysam.c:751:34: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 751 | ma->gvcf = (gvcf_aux_t*) calloc(ma->n,sizeof(gvcf_aux_t)); // -Walloc-size-larger-than gives a harmless warning caused by signed integer ma->n | ^ /usr/include/stdlib.h:675:14: note: in a call to allocation function ‘calloc’ declared here 675 | extern void *calloc (size_t __nmemb, size_t __size) | ^ Compiling pysam/libcutils.pyx because it changed. [1/1] Cythonizing pysam/libcutils.pyx building 'pysam.libcutils' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcutils.c -o build/temp.linux-s390x-cpython-312/pysam/libcutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/pysam_util.c -o build/temp.linux-s390x-cpython-312/pysam/pysam_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcutils.o build/temp.linux-s390x-cpython-312/pysam/pysam_util.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcsamtools.cpython-312-s390x-linux-gnu -lcbcftools.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcutils.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN warning: pysam/libcalignmentfile.pyx:2572:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2577:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2582:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2621:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2626:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2631:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation Compiling pysam/libcalignmentfile.pyx because it changed. [1/1] Cythonizing pysam/libcalignmentfile.pyx building 'pysam.libcalignmentfile' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcalignmentfile.c -o build/temp.linux-s390x-cpython-312/pysam/libcalignmentfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcalignmentfile.c: In function ‘__pyx_pf_5pysam_17libcalignmentfile_13AlignmentFile_6_open’: pysam/libcalignmentfile.c:20430:20: warning: ignoring return value of ‘sam_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 20430 | (void)(sam_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_hdr)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcalignmentfile.c: In function ‘__pyx_f_5pysam_17libcalignmentfile_20IteratorRowSelection_cnext’: pysam/libcalignmentfile.c:37151:16: warning: ignoring return value of ‘bgzf_seek’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37151 | (void)(bgzf_seek(hts_get_bgzfp(__pyx_v_self->__pyx_base.htsfile), __pyx_v_pos, 0)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcalignmentfile.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcalignmentfile.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN Compiling pysam/libcsamfile.pyx because it changed. [1/1] Cythonizing pysam/libcsamfile.pyx building 'pysam.libcsamfile' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcsamfile.c -o build/temp.linux-s390x-cpython-312/pysam/libcsamfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcsamfile.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcsamfile.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN Compiling pysam/libcalignedsegment.pyx because it changed. [1/1] Cythonizing pysam/libcalignedsegment.pyx building 'pysam.libcalignedsegment' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcalignedsegment.c -o build/temp.linux-s390x-cpython-312/pysam/libcalignedsegment.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcalignedsegment.c: In function ‘__pyx_pf_5pysam_18libcalignedsegment_14AlignedSegment_18fromstring’: pysam/libcalignedsegment.c:35814:10: warning: ignoring return value of ‘sam_parse1’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 35814 | (void)(sam_parse1((&__pyx_v_line), __pyx_v_dest->header->ptr, __pyx_v_dest->_delegate)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcalignedsegment.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcalignedsegment.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN Compiling pysam/libctabix.pyx because it changed. [1/1] Cythonizing pysam/libctabix.pyx building 'pysam.libctabix' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libctabix.c -o build/temp.linux-s390x-cpython-312/pysam/libctabix.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libctabix.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libctabix.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN Compiling pysam/libcfaidx.pyx because it changed. [1/1] Cythonizing pysam/libcfaidx.pyx building 'pysam.libcfaidx' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcfaidx.c -o build/temp.linux-s390x-cpython-312/pysam/libcfaidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcfaidx.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcfaidx.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN Compiling pysam/libcbcf.pyx because it changed. [1/1] Cythonizing pysam/libcbcf.pyx building 'pysam.libcbcf' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcbcf.c -o build/temp.linux-s390x-cpython-312/pysam/libcbcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcbcf.c: In function ‘__pyx_f_5pysam_7libcbcf_11VariantFile_write’: pysam/libcbcf.c:86755:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 86755 | (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_6close’: pysam/libcbcf.c:81419:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 81419 | (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_13VariantHeader_20add_meta’: pysam/libcbcf.c:44519:11: warning: ignoring return value of ‘bcf_hrec_add_key’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 44519 | bcf_hrec_add_key(__pyx_v_hrec, __pyx_t_17, ((int)__pyx_t_18)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcbcf.c:44545:11: warning: ignoring return value of ‘bcf_hrec_set_val’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 44545 | bcf_hrec_set_val(__pyx_v_hrec, (__pyx_v_hrec->nkeys - 1), __pyx_t_19, ((int)__pyx_t_18), __pyx_v_quoted); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_4__dealloc__’: pysam/libcbcf.c:81103:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 81103 | (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcbcf.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcbcf.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN Compiling pysam/libcbgzf.pyx because it changed. [1/1] Cythonizing pysam/libcbgzf.pyx building 'pysam.libcbgzf' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcbgzf.c -o build/temp.linux-s390x-cpython-312/pysam/libcbgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcbgzf.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcbgzf.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN Compiling pysam/libctabixproxies.pyx because it changed. [1/1] Cythonizing pysam/libctabixproxies.pyx building 'pysam.libctabixproxies' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libctabixproxies.c -o build/temp.linux-s390x-cpython-312/pysam/libctabixproxies.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libctabixproxies.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libctabixproxies.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN warning: pysam/libcvcf.pyx:1083:27: Unreachable code Compiling pysam/libcvcf.pyx because it changed. [1/1] Cythonizing pysam/libcvcf.pyx building 'pysam.libcvcf' extension gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fexceptions -fexceptions -fexceptions -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -fPIC -I/builddir/build/BUILD/pysam-0.21.0/pysam -I/builddir/build/BUILD/pysam-0.21.0/htslib -I/builddir/build/BUILD/pysam-0.21.0/samtools -I/builddir/build/BUILD/pysam-0.21.0/samtools/lz4 -I/builddir/build/BUILD/pysam-0.21.0/bcftools -I/builddir/build/BUILD/pysam-0.21.0 -I/usr/include/python3.12 -c pysam/libcvcf.c -o build/temp.linux-s390x-cpython-312/pysam/libcvcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcvcf.c: In function ‘__pyx_pf_5pysam_7libcvcf_3VCF_32parse_data.isra.0’: pysam/libcvcf.c:29574:16: warning: ‘__pyx_v_qual’ may be used uninitialized [-Wmaybe-uninitialized] 29574 | __pyx_t_11 = PyFloat_FromDouble(__pyx_v_qual); if (unlikely(!__pyx_t_11)) __PYX_ERR(0, 873, __pyx_L1_error) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcvcf.c:24723:10: note: ‘__pyx_v_qual’ was declared here 24723 | double __pyx_v_qual; | ^~~~~~~~~~~~ gcc -shared -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 -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC build/temp.linux-s390x-cpython-312/pysam/libcvcf.o -L/builddir/build/BUILD/pysam-0.21.0/pysam -L/builddir/build/BUILD/pysam-0.21.0 -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -Lbuild/lib.linux-s390x-cpython-312/pysam -L/usr/lib64 -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-312-s390x-linux-gnu -lcutils.cpython-312-s390x-linux-gnu -o build/lib.linux-s390x-cpython-312/pysam/libcvcf.cpython-312-s390x-linux-gnu.so -Wl,-rpath,$ORIGIN ++ echo /builddir/build/BUILD/pysam-0.21.0/build/lib.linux-s390x-cpython-312 + PYTHONPATH=/builddir/build/BUILD/pysam-0.21.0/build/lib.linux-s390x-cpython-312 + sphinx-build-3 doc html Running Sphinx v7.1.2 making output directory... done [autosummary] generating autosummary for: api.rst, benchmarking.rst, developer.rst, faq.rst, glossary.rst, index.rst, installation.rst, release.rst, usage.rst loading intersphinx inventory from https://docs.python.org/3.12/objects.inv... WARNING: failed to reach any of the inventories with the following issues: intersphinx inventory 'https://docs.python.org/3.12/objects.inv' not fetchable due to : HTTPSConnectionPool(host='docs.python.org', port=443): Max retries exceeded with url: /3.12/objects.inv (Caused by NewConnectionError(': Failed to establish a new connection: [Errno -3] Temporary failure in name resolution')) building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 9 source files that are out of date updating environment: [new config] 9 added, 0 changed, 0 removed reading sources... [100%] usage looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done copying assets... copying static files... done copying extra files... done done writing output... [100%] usage generating indices... genindex done writing additional pages... search done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 1 warning. The HTML pages are in html. + rm -rf html/.doctrees html/.buildinfo + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.eOgOtc + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x '!=' / ']' + rm -rf /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x ++ dirname /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x + 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection ' + 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection ' + 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -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 pysam-0.21.0 + 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection ' + 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 ' + /usr/bin/python3 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x --prefix /usr /builddir/build/BUILD/pysam-0.21.0/setup.py:435: SyntaxWarning: invalid escape sequence '\S' "#define (\S+)\s+(\S+)", line).groups() # pysam: cython is available - using cythonize if necessary # pysam: htslib mode is shared # pysam: HTSLIB_CONFIGURE_OPTIONS=None # pysam: (env) CC=gcc # pysam: (env) 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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC # pysam: (env) 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 checking for gcc... gcc 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 gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for ranlib... ranlib checking for grep that handles long lines and -e... /usr/bin/grep checking for C compiler warning flags... -Wall configure: Default CFLAGS_ARM/X86: -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC checking whether C compiler accepts -mssse3 -mpopcnt -msse4.1... no checking whether C compiler accepts -mavx2... no checking whether C compiler accepts -mavx512f... no checking whether C compiler supports ARM Neon... no checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking shared library type for unknown-Linux... plain .so checking whether the linker supports versioned symbols... no checking whether the compiler accepts -fvisibility=hidden... yes checking how to run the C preprocessor... gcc -E 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 stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... yes checking for getpagesize... yes checking for working mmap... yes checking for gmtime_r... yes checking for fsync... yes checking for drand48... yes checking for srand48_deterministic... no checking whether fdatasync is declared... yes checking for fdatasync... yes checking for library containing log... -lm checking for zlib.h... yes checking for inflate in -lz... yes checking for library containing recv... none required checking for bzlib.h... yes checking for BZ2_bzBuffToBuffCompress in -lbz2... yes checking for lzma.h... yes checking for lzma_easy_buffer_encode in -llzma... yes checking whether htscodecs files are present... yes checking for libdeflate.h... no checking for libdeflate_deflate_compress in -ldeflate... no checking for curl/curl.h... no checking for curl_easy_pause in -lcurl... no checking for curl_easy_init in -lcurl... no configure: error: libcurl library not found Support for HTTPS and other SSL-based URLs requires routines from the libcurl library . Building HTSlib with libcurl enabled requires libcurl development files to be installed on the build machine; you may need to ensure a package such as libcurl4-{gnutls,nss,openssl}-dev (on Debian or Ubuntu Linux) or libcurl-devel (on RPM-based Linux distributions or Cygwin) is installed. Either configure with --disable-libcurl or resolve this error to build HTSlib. checking for gcc... gcc 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 gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for ranlib... ranlib checking for grep that handles long lines and -e... /usr/bin/grep checking for C compiler warning flags... -Wall configure: Default CFLAGS_ARM/X86: -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fPIC checking whether C compiler accepts -mssse3 -mpopcnt -msse4.1... no checking whether C compiler accepts -mavx2... no checking whether C compiler accepts -mavx512f... no checking whether C compiler supports ARM Neon... no checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking shared library type for unknown-Linux... plain .so checking whether the linker supports versioned symbols... no checking whether the compiler accepts -fvisibility=hidden... yes checking how to run the C preprocessor... gcc -E 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 stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... yes checking for getpagesize... yes checking for working mmap... yes checking for gmtime_r... yes checking for fsync... yes checking for drand48... yes checking for srand48_deterministic... no checking whether fdatasync is declared... yes checking for fdatasync... yes checking for library containing log... -lm checking for zlib.h... yes checking for inflate in -lz... yes checking for library containing recv... none required checking for bzlib.h... yes checking for BZ2_bzBuffToBuffCompress in -lbz2... yes checking for lzma.h... yes checking for lzma_easy_buffer_encode in -llzma... yes checking whether htscodecs files are present... yes checking for libdeflate.h... no checking for libdeflate_deflate_compress in -ldeflate... no configure: WARNING: GCS support not enabled: requires libcurl support configure: WARNING: S3 support not enabled: requires libcurl support checking for library containing regcomp... none required checking whether PTHREAD_MUTEX_RECURSIVE is declared... yes configure: creating ./config.status config.status: creating config.mk config.status: creating htslib.pc.tmp config.status: creating config.h config.status: config.h is unchanged config.status: linking htscodecs_bundled.mk to htscodecs.mk # pysam: htslib configure options: --disable-libcurl # pysam: htslib_config HTS_CFLAGS_AVX2= # pysam: htslib_config HTS_CFLAGS_AVX512= # pysam: htslib_config HTS_CFLAGS_SSE4= # pysam: htslib_config HTS_HAVE_NEON= # pysam: htslib_config LIBHTS_OBJS=kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/utils.o # pysam: htslib_config LIBS=-llzma -lbz2 -lz -lm # pysam: htslib_config PLATFORM=default # pysam: config_option: ENABLE_GCS=0 # pysam: config_option: ENABLE_PLUGINS=0 # pysam: config_option: ENABLE_S3=0 # pysam: config_option: HAVE_COMMONCRYPTO=0 # pysam: config_option: HAVE_HMAC=0 # pysam: config_option: HAVE_LIBBZ2=1 # pysam: config_option: HAVE_LIBCURL=0 # pysam: config_option: HAVE_LIBDEFLATE=0 # pysam: config_option: HAVE_LIBLZMA=1 # pysam: config_option: HAVE_MMAP=1 running install /usr/lib/python3.12/site-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer, pypa/build or other standards-based tools. Follow the current Python packaging guidelines when building Python RPM packages. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html and https://docs.fedoraproject.org/en-US/packaging-guidelines/Python/ for details. ******************************************************************************** !! self.initialize_options() running install_lib creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64 creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12 creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/__pycache__ copying build/lib.linux-s390x-cpython-312/pysam/__pycache__/version.cpython-312.pyc -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/__pycache__ copying build/lib.linux-s390x-cpython-312/pysam/__pycache__/config.cpython-312.pyc -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/__pycache__ copying build/lib.linux-s390x-cpython-312/pysam/__pycache__/samtools.cpython-312.pyc -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/__pycache__ copying build/lib.linux-s390x-cpython-312/pysam/__pycache__/Pileup.cpython-312.pyc -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/__pycache__ copying build/lib.linux-s390x-cpython-312/pysam/__pycache__/utils.cpython-312.pyc -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/__pycache__ copying build/lib.linux-s390x-cpython-312/pysam/__pycache__/__init__.cpython-312.pyc -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/__pycache__ copying build/lib.linux-s390x-cpython-312/pysam/libcvcf.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libctabixproxies.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbgzf.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbcf.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcfaidx.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libctabix.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcalignedsegment.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcsamfile.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcalignmentfile.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcutils.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbcftools.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcsamtools.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libchtslib.cpython-312-s390x-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/version.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/version.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/pysam_util.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/pysam_util.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/pysam_stream.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/py.typed -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcvcf.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcvcf.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcvcf.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcutils.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcutils.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcutils.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libctabixproxies.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libctabixproxies.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libctabixproxies.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libctabix.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libctabix.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libctabix.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcsamtools.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcsamtools.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcsamtools.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcsamfile.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcsamfile.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcsamfile.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libchtslib.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libchtslib.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libchtslib.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcfaidx.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcfaidx.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcfaidx.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbgzf.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbgzf.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbcftools.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbcftools.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbcftools.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbcf.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbcf.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcbcf.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcalignmentfile.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcalignmentfile.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcalignmentfile.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcalignedsegment.pyx -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcalignedsegment.pyi -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/libcalignedsegment.pxd -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/htslib_util.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/htslib_util.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/csamtools_util.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/cbcftools_util.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/vcfutils.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/vcf_sweep.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/vcf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/thread_pool.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/tbx.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/synced_bcf_reader.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/sam.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/regidx.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/kstring.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/ksort.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/kseq.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/kroundup.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/knetfile.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/klist.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/khash_str2int.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/khash.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/kfunc.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/kbitset.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/hts_os.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/hts_log.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/hts_expr.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/hts_endian.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/hts_defs.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/hts.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/hfile.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/faidx.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/cram.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib/bgzf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/config.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/os copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/os/rand.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/os copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/os/lzma_stub.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/os creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/m4 copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4/pkg.m4 -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/m4 copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4/hts_prog_cc_warnings.m4 -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/m4 copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4/hts_hide_dynamic_syms.m4 -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/m4 copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/m4/ax_check_compile_flag.m4 -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/m4 creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/version.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/varint2.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/varint.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/utils.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/utils.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/tokenise_name3.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/tokenise_name3.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rle.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rle.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_word.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static4x16pr.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static4x16.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_sse4.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_neon.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx512.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx2.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static16_int.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_static.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/rANS_byte.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/pooled_alloc.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/permute.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/pack.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/pack.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/htscodecs_endian.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/htscodecs.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/htscodecs.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/fqzcomp_qual.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/fqzcomp_qual.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/c_simple_model.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/c_range_coder.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/arith_dynamic.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs/htscodecs/arith_dynamic.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/htscodecs/htscodecs creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/string_alloc.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/string_alloc.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/pooled_alloc.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/pooled_alloc.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/os.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/open_trace_file.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/open_trace_file.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/misc.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/mFILE.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/mFILE.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_structs.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_stats.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_stats.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_samtools.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_io.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_io.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_index.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_index.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_external.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_encode.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_encode.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_decode.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_decode.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_codecs.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram_codecs.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/cram/cram.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib/cram copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/version.sh -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/vcfutils.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/vcf_sweep.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/vcf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/thread_pool_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/thread_pool.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/textutils_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/textutils.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/tbx.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/tabix.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/synced_bcf_reader.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/sam_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/sam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/region.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/regidx.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/realn.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/probaln.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/plugin.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/multipart.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/md5.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/kstring.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/kfunc.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib_vars.mk -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib.pc.in -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htslib.mk -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htsfile.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs_external.mk -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/htscodecs_bundled.mk -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hts_time_funcs.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hts_os.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hts_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hts_expr.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hts.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hfile_s3_write.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hfile_s3.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hfile_libcurl.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hfile_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hfile_gcs.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/hfile.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/header.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/header.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/faidx.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/errmod.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/configure.ac -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/configure -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/config.mk.in -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/config.h.in -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/builddir_vars.mk.in -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/bgzip.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/bgzf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/bcf_sr_sort.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/bcf_sr_sort.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/README -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/Makefile -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib copying build/lib.linux-s390x-cpython-312/pysam/include/htslib/LICENSE -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/htslib creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/config.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/version.sh -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/version.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/version.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcmp.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcmp.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcmp.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfview.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfview.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfstats.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfstats.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfsort.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfsort.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfsom.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfsom.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfroh.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfroh.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfquery.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfquery.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfplugin.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfplugin.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfnorm.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfnorm.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfmerge.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfmerge.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfisec.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfisec.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfindex.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfindex.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfhead.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfhead.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfgtcheck.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfgtcheck.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcffilter.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcffilter.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfconvert.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfconvert.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfconcat.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfconcat.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfcnv.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfcnv.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfcall.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfcall.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfbuf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfbuf.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfbuf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfannotate.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/vcfannotate.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/variantkey.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/utlist.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/tsv2vcf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/tsv2vcf.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/tsv2vcf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/tabix.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/tabix.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/str_finder.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/str_finder.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/str_finder.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/smpl_ilist.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/smpl_ilist.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/smpl_ilist.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/reheader.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/reheader.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/regidx.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/regidx.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/regidx.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/read_consensus.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/read_consensus.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/read_consensus.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/rbuf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/prob1.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/prob1.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/prob1.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/ploidy.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/ploidy.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/ploidy.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/mw.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/mpileup.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/mpileup.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/mcall.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/mcall.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/main.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/main.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/kmin.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/kmin.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/kmin.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/kheap.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/khash_str2str.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/hex.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/hclust.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/hclust.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/hclust.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/gvcf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/gvcf.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/gvcf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/filter.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/filter.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/filter.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/extsort.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/extsort.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/extsort.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/em.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/em.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/dist.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/dist.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/dist.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/dbuf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/csq.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/csq.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/convert.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/convert.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/convert.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/consensus.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/consensus.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/cols.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/cols.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/cols.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/cigar_state.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/ccall.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/ccall.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/call.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bin.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bin.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bin.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bcftools.pysam.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bcftools.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bcftools.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam_sample.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam_sample.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam_sample.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam2bcf_indel.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam2bcf_indel.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam2bcf_iaux.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam2bcf_iaux.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam2bcf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam2bcf.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/bam2bcf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/abuf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/abuf.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/abuf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/README -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/LICENSE -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/HMM.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/HMM.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools copying build/lib.linux-s390x-cpython-312/pysam/include/bcftools/HMM.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/bcftools creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/config.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools creating /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools/lz4 copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4/lz4.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools/lz4 copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4/lz4.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools/lz4 copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4/lz4.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools/lz4 copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/lz4/LICENSE -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools/lz4 copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/version.sh -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/tmp_file.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/tmp_file.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/tmp_file.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/stats_isize.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/stats_isize.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/stats_isize.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/stats.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/stats.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/splaysort.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/samtools.pysam.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/samtools.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/samtools.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sample.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sample.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sample.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sam_view.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sam_view.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sam_utils.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sam_utils.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sam_utils.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sam_opts.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sam_opts.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/sam_opts.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/reset.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/reset.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/reference.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/reference.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/phase.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/phase.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/padding.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/padding.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/faidx.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/faidx.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/dict.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/dict.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/cut_target.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/cut_target.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/cram_size.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/cram_size.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/coverage.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/coverage.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/consensus_pileup.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/consensus_pileup.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/consensus_pileup.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bedidx.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bedidx.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bedidx.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bedcov.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bedcov.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bamtk.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bamtk.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bamshuf.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bamshuf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_stat.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_stat.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_split.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_split.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_sort.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_sort.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_samples.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_samples.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_rmdupse.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_rmdupse.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_rmdup.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_rmdup.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_reheader.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_reheader.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_quickcheck.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_quickcheck.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_plcmd.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_plcmd.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_plbuf.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_plbuf.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_plbuf.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_md.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_md.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_mate.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_mate.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_markdup.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_markdup.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_lpileup.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_lpileup.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_lpileup.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_index.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_index.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_import.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_import.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_flags.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_flags.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_fastq.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_fastq.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_consensus.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_consensus.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_color.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_color.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_cat.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_cat.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_aux.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_aux.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_ampliconclip.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_ampliconclip.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_ampliconclip.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_addrprg.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam_addrprg.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam2depth.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam2depth.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam.h -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/bam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/amplicon_stats.c.pysam.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/amplicon_stats.c -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/README -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/samtools/LICENSE -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/samtools copying build/lib.linux-s390x-cpython-312/pysam/include/__init__.py -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include copying build/lib.linux-s390x-cpython-312/pysam/Pileup.py -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/__init__.py -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/bcftools.py -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/samtools.py -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/utils.py -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/version.py -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam copying build/lib.linux-s390x-cpython-312/pysam/config.py -> /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam byte-compiling /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/include/__init__.py to __init__.cpython-312.pyc byte-compiling /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/bcftools.py to bcftools.cpython-312.pyc writing byte-compilation script '/tmp/tmpfh0zilkw.py' /usr/bin/python3 /tmp/tmpfh0zilkw.py removing /tmp/tmpfh0zilkw.py running install_egg_info running egg_info writing pysam.egg-info/PKG-INFO writing dependency_links to pysam.egg-info/dependency_links.txt writing requirements to pysam.egg-info/requires.txt writing top-level names to pysam.egg-info/top_level.txt reading manifest file 'pysam.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'KNOWN_BUGS' warning: no files found matching 'THANKS' no previously-included directories found matching 'tests/' adding license file 'COPYING' adding license file 'AUTHORS' writing manifest file 'pysam.egg-info/SOURCES.txt' Copying pysam.egg-info to /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam-0.21.0-py3.12.egg-info running install_scripts + rm -rfv /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/bin/__pycache__ + rm /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcalignedsegment.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcalignmentfile.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcbcf.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcbcftools.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcbgzf.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcfaidx.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libchtslib.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcsamfile.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcsamtools.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libctabix.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libctabixproxies.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcutils.pyx /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/libcvcf.pyx + rm /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/htslib_util.c /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12/site-packages/pysam/pysam_util.c + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 0.21.0-2.fc40 --unique-debug-suffix -0.21.0-2.fc40.s390x --unique-debug-src-base python-pysam-0.21.0-2.fc40.s390x --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/pysam-0.21.0 find-debuginfo: starting Extracting debug info from 13 files DWARF-compressing 13 files sepdebugcrcfix: Updated 13 CRC32s, 0 CRC32s did match. Creating .debug symlinks for symlinks to ELF files Copying sources found by 'debugedit -l' to /usr/src/debug/python-pysam-0.21.0-2.fc40.s390x 52963 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/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs mangling shebang in /usr/lib64/python3.12/site-packages/pysam/include/samtools/version.sh from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/python3.12/site-packages/pysam/include/bcftools/version.sh from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/python3.12/site-packages/pysam/include/htslib/configure from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/python3.12/site-packages/pysam/include/htslib/version.sh from /bin/sh to #!/usr/bin/sh + /usr/lib/rpm/brp-remove-la-files + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j2 Bytecompiling .py files below /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib/debug/usr/lib64/python3.12 using python3.12 Bytecompiling .py files below /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/lib64/python3.12 using python3.12 + /usr/lib/rpm/redhat/brp-python-hardlink Processing files: python3-pysam-0.21.0-2.fc40.s390x Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.T9Y7hW + umask 022 + cd /builddir/build/BUILD + cd pysam-0.21.0 + DOCDIR=/builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/doc/python3-pysam + export LC_ALL= + LC_ALL= + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/doc/python3-pysam + cp -pr /builddir/build/BUILD/pysam-0.21.0/README.rst /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/doc/python3-pysam + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.4g73OL + umask 022 + cd /builddir/build/BUILD + cd pysam-0.21.0 + LICENSEDIR=/builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/licenses/python3-pysam + export LC_ALL= + LC_ALL= + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/licenses/python3-pysam + cp -pr /builddir/build/BUILD/pysam-0.21.0/COPYING /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/licenses/python3-pysam + cp -pr /builddir/build/BUILD/pysam-0.21.0/bcftools/LICENSE /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/licenses/python3-pysam + cp -pr /builddir/build/BUILD/pysam-0.21.0/htslib/LICENSE /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/licenses/python3-pysam + cp -pr /builddir/build/BUILD/pysam-0.21.0/samtools/LICENSE /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/licenses/python3-pysam + RPM_EC=0 ++ jobs -p + exit 0 warning: File listed twice: /usr/share/licenses/python3-pysam/LICENSE warning: File listed twice: /usr/share/licenses/python3-pysam/LICENSE Provides: bundled(bcftools) = 1.18 bundled(htslib) = 1.18 bundled(samtools) = 1.18 libcalignedsegment.cpython-312-s390x-linux-gnu.so()(64bit) libcalignmentfile.cpython-312-s390x-linux-gnu.so()(64bit) libcbcf.cpython-312-s390x-linux-gnu.so()(64bit) libcbcftools.cpython-312-s390x-linux-gnu.so()(64bit) libcbgzf.cpython-312-s390x-linux-gnu.so()(64bit) libcfaidx.cpython-312-s390x-linux-gnu.so()(64bit) libchtslib.cpython-312-s390x-linux-gnu.so()(64bit) libcsamfile.cpython-312-s390x-linux-gnu.so()(64bit) libcsamtools.cpython-312-s390x-linux-gnu.so()(64bit) libctabix.cpython-312-s390x-linux-gnu.so()(64bit) libctabixproxies.cpython-312-s390x-linux-gnu.so()(64bit) libcutils.cpython-312-s390x-linux-gnu.so()(64bit) libcvcf.cpython-312-s390x-linux-gnu.so()(64bit) python-pysam = 0.21.0-2.fc40 python3-pysam = 0.21.0-2.fc40 python3-pysam(s390-64) = 0.21.0-2.fc40 python3.12-pysam = 0.21.0-2.fc40 python3.12dist(pysam) = 0.21 python3dist(pysam) = 0.21 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.11)(64bit) libc.so.6(GLIBC_2.2)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(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) libcbcftools.cpython-312-s390x-linux-gnu.so()(64bit) libchtslib.cpython-312-s390x-linux-gnu.so()(64bit) libcsamtools.cpython-312-s390x-linux-gnu.so()(64bit) liblzma.so.5()(64bit) liblzma.so.5(XZ_5.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.4)(64bit) libz.so.1()(64bit) python(abi) = 3.12 python3.12dist(cython) rtld(GNU_HASH) Obsoletes: python-pysam < 0.21.0-2.fc40 Processing files: python3-pysam-devel-0.21.0-2.fc40.s390x Provides: python-pysam-devel = 0.21.0-2.fc40 python3-pysam-devel = 0.21.0-2.fc40 python3-pysam-devel(s390-64) = 0.21.0-2.fc40 python3.12-pysam-devel = 0.21.0-2.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/sh python(abi) = 3.12 Processing files: python-pysam-doc-0.21.0-2.fc40.noarch Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.QOUC59 + umask 022 + cd /builddir/build/BUILD + cd pysam-0.21.0 + DOCDIR=/builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/doc/python-pysam-doc + export LC_ALL= + LC_ALL= + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/doc/python-pysam-doc + cp -pr /builddir/build/BUILD/pysam-0.21.0/html /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x/usr/share/doc/python-pysam-doc + RPM_EC=0 ++ jobs -p + exit 0 Provides: python-pysam-doc = 0.21.0-2.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: python-pysam-debugsource-0.21.0-2.fc40.s390x Provides: python-pysam-debugsource = 0.21.0-2.fc40 python-pysam-debugsource(s390-64) = 0.21.0-2.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: python3-pysam-debuginfo-0.21.0-2.fc40.s390x Provides: debuginfo(build-id) = 03c9f971459bf204a23d2f49327e974bde853e6f debuginfo(build-id) = 0578e0281ee1875b2128ee4a690a8dff55c16db3 debuginfo(build-id) = 2d61f6ce32510012ac4c8edb132e2d7c2b84c8d7 debuginfo(build-id) = 38645d08635723c6ae3f4a2620f633ee69b082c4 debuginfo(build-id) = 5005a4b5f690b900ad3a6379f511d3b2ebd56eb7 debuginfo(build-id) = 50c7ae32090e5f5761baf9dbf845ce73bde7833c debuginfo(build-id) = 549587f08ea58fdf80ddf0739536bc4dab08b9e8 debuginfo(build-id) = 58d73d8ba20fb8e66347500ab02716dfacd64ad0 debuginfo(build-id) = 69db5fd6389ef0d7bb450694351f084787e4c1e1 debuginfo(build-id) = 8fea07f6f84e188598296fdaf04cc6a2e2f90e89 debuginfo(build-id) = 918153547ecba172430a42785492cd0f80c59ff5 debuginfo(build-id) = b2a3172b79b6fc1b303187291954eed987ff48e5 debuginfo(build-id) = b3b7e94bd28b87a252c4f0411674ec56953e41b2 libcalignedsegment.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcalignmentfile.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcbcf.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcbcftools.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcbgzf.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcfaidx.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libchtslib.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcsamfile.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcsamtools.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libctabix.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libctabixproxies.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcutils.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) libcvcf.cpython-312-s390x-linux-gnu.so-0.21.0-2.fc40.s390x.debug()(64bit) python-pysam-debuginfo = 0.21.0-2.fc40 python3-pysam-debuginfo = 0.21.0-2.fc40 python3-pysam-debuginfo(s390-64) = 0.21.0-2.fc40 python3.12-pysam-debuginfo = 0.21.0-2.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: python-pysam-debugsource(s390-64) = 0.21.0-2.fc40 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x Wrote: /builddir/build/RPMS/python3-pysam-debuginfo-0.21.0-2.fc40.s390x.rpm Wrote: /builddir/build/RPMS/python-pysam-debugsource-0.21.0-2.fc40.s390x.rpm Wrote: /builddir/build/RPMS/python3-pysam-devel-0.21.0-2.fc40.s390x.rpm Wrote: /builddir/build/RPMS/python-pysam-doc-0.21.0-2.fc40.noarch.rpm Wrote: /builddir/build/RPMS/python3-pysam-0.21.0-2.fc40.s390x.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.GPZd2q + umask 022 + cd /builddir/build/BUILD + cd pysam-0.21.0 + /usr/bin/rm -rf /builddir/build/BUILDROOT/python-pysam-0.21.0-2.fc40.s390x + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.65zAg8 + umask 022 + cd /builddir/build/BUILD + rm -rf /builddir/build/BUILD/pysam-0.21.0-SPECPARTS + rm -rf pysam-0.21.0 pysam-0.21.0.gemspec + RPM_EC=0 ++ jobs -p + exit 0 RPM build warnings: File listed twice: /usr/share/licenses/python3-pysam/LICENSE File listed twice: /usr/share/licenses/python3-pysam/LICENSE Finish: rpmbuild python-pysam-0.21.0-2.fc40.src.rpm Finish: build phase for python-pysam-0.21.0-2.fc40.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-s390x-1694975550.734558/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-s390x-1694975550.734558/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-s390x-1694975550.734558/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/python-pysam-0.21.0-2.fc40.src.rpm) Config(child) 8 minutes 11 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": "python3-pysam-debuginfo", "epoch": null, "version": "0.21.0", "release": "2.fc40", "arch": "s390x" }, { "name": "python-pysam", "epoch": null, "version": "0.21.0", "release": "2.fc40", "arch": "src" }, { "name": "python-pysam-doc", "epoch": null, "version": "0.21.0", "release": "2.fc40", "arch": "noarch" }, { "name": "python-pysam-debugsource", "epoch": null, "version": "0.21.0", "release": "2.fc40", "arch": "s390x" }, { "name": "python3-pysam", "epoch": null, "version": "0.21.0", "release": "2.fc40", "arch": "s390x" }, { "name": "python3-pysam-devel", "epoch": null, "version": "0.21.0", "release": "2.fc40", "arch": "s390x" } ] } RPMResults finished