Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c155' (ED25519) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 5175347 --chroot fedora-rawhide-i386 --detached Version: 0.62 PID: 11820 Logging PID: 11821 Task: {'appstream': False, 'background': True, 'build_id': 5175347, 'buildroot_pkgs': [], 'chroot': 'fedora-rawhide-i386', 'enable_net': False, 'fedora_review': False, 'git_hash': '23b9edce3f11f453b4f07217d09d53ed2003dab0', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/jakub/gcc-13-test/python-pysam', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'python-pysam', 'package_version': '0.19.1-3', 'project_dirname': 'gcc-13-test', 'project_name': 'gcc-13-test', 'project_owner': 'jakub', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/jakub/gcc-13-test/fedora-rawhide-i386/', 'id': 'copr_base', 'name': 'Copr repository'}, {'baseurl': 'https://jakub.fedorapeople.org/fedora-gcc13-$arch/', 'id': 'https_jakub_fedorapeople_org_fedora_gcc13_arch', 'name': 'Additional repo https_jakub_fedorapeople_org_fedora_gcc13_arch'}], 'sandbox': 'jakub/gcc-13-test--jakub', 'source_json': {}, 'source_type': None, 'submitter': 'jakub', 'tags': [], 'task_id': '5175347-fedora-rawhide-i386', 'timeout': 115200, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/jakub/gcc-13-test/python-pysam /var/lib/copr-rpmbuild/workspace/workdir-8kbsl6mn/python-pysam --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/jakub/gcc-13-test/python-pysam', '/var/lib/copr-rpmbuild/workspace/workdir-8kbsl6mn/python-pysam', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-8kbsl6mn/python-pysam'... Running: git checkout 23b9edce3f11f453b4f07217d09d53ed2003dab0 cmd: ['git', 'checkout', '23b9edce3f11f453b4f07217d09d53ed2003dab0'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-8kbsl6mn/python-pysam rc: 0 stdout: stderr: Note: switching to '23b9edce3f11f453b4f07217d09d53ed2003dab0'. 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 23b9edc 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-8kbsl6mn/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-0.19.1.tar.gz INFO: Calling: curl -H Pragma: -o pysam-0.19.1.tar.gz --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/jakub/gcc-13-test/python-pysam/pysam-0.19.1.tar.gz/md5/8e37b3f725259f08a33785317ccbc019/pysam-0.19.1.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 3767k 100 3767k 0 0 27.1M 0 --:--:-- --:--:-- --:--:-- 27.2M INFO: Reading stdout from command: md5sum pysam-0.19.1.tar.gz Running (timeout=115200): unbuffer mock --buildsrpm --spec /var/lib/copr-rpmbuild/workspace/workdir-8kbsl6mn/python-pysam/python-pysam.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-8kbsl6mn/python-pysam --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1672139028.021383 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.5 starting (python version = 3.11.0, NVR = mock-3.5-1.fc37)... 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-8kbsl6mn/python-pysam/python-pysam.spec) Config(fedora-rawhide-i686) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-i686-bootstrap-1672139028.021383/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: enabled HW Info plugin Mock Version: 3.5 INFO: Mock Version: 3.5 Start(bootstrap): dnf install No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 13 MB/s | 31 MB 00:02 Additional repo https_jakub_fedorapeople_org_fe 309 kB/s | 86 kB 00:00 local 39 MB/s | 60 MB 00:01 Dependencies resolved. ========================================================================================================================= Package Arch Version Repository Size ========================================================================================================================= Installing: dnf noarch 4.14.0-1.fc38 local 469 k dnf-plugins-core noarch 4.3.1-1.fc38 local 34 k Installing dependencies: alternatives i686 1.21-1.fc38 copr_base 39 k audit-libs i686 3.0.9-2.fc38 local 122 k basesystem noarch 11-14.fc37 local 7.0 k bash i686 5.2.9-3.fc38 copr_base 1.8 M bzip2-libs i686 1.0.8-12.fc38 copr_base 42 k ca-certificates noarch 2022.2.54-5.fc37 local 829 k coreutils i686 9.1-8.fc38 copr_base 1.1 M coreutils-common i686 9.1-8.fc38 copr_base 2.0 M crypto-policies noarch 20221215-1.gita4c31a3.fc38 local 63 k curl i686 7.87.0-1.fc38 copr_base 347 k cyrus-sasl-lib i686 2.1.28-8.fc38 copr_base 858 k dbus-libs i686 1:1.14.4-1.fc38 copr_base 167 k dnf-data noarch 4.14.0-1.fc38 local 43 k elfutils-default-yama-scope noarch 0.188-3.fc38 copr_base 16 k elfutils-libelf i686 0.188-3.fc38 copr_base 204 k elfutils-libs i686 0.188-3.fc38 copr_base 287 k expat i686 2.5.0-1.fc38 copr_base 115 k fedora-gpg-keys noarch 38-0.3 local 115 k fedora-release noarch 38-0.6 local 11 k fedora-release-common noarch 38-0.6 local 21 k fedora-release-identity-basic noarch 38-0.6 local 11 k fedora-repos noarch 38-0.3 local 10 k fedora-repos-rawhide noarch 38-0.3 local 9.7 k file-libs i686 5.42-4.fc38 copr_base 684 k filesystem i686 3.18-2.fc37 local 1.1 M findutils i686 1:4.9.0-2.fc38 copr_base 494 k gawk i686 5.1.1-4.fc38 copr_base 1.0 M gdbm-libs i686 1:1.23-2.fc38 copr_base 60 k glib2 i686 2.74.1-2.fc38 copr_base 2.8 M glibc i686 2.36.9000-19.fc38 local 1.9 M glibc-common i686 2.36.9000-19.fc38 local 315 k glibc-minimal-langpack i686 2.36.9000-19.fc38 local 30 k gmp i686 1:6.2.1-3.fc38 copr_base 306 k gnupg2 i686 2.3.8-1.fc38 copr_base 2.6 M gnutls i686 3.7.8-9.fc38 copr_base 1.1 M gpgme i686 1.17.1-3.fc38 copr_base 219 k grep i686 3.8-1.fc38 copr_base 289 k ima-evm-utils i686 1.4-6.fc38 copr_base 63 k json-c i686 0.16-3.fc38 copr_base 44 k keyutils-libs i686 1.6.1-5.fc38 copr_base 32 k krb5-libs i686 1.20.1-3.fc38 copr_base 764 k libacl i686 2.3.1-4.fc38 copr_base 25 k libarchive i686 3.6.1-3.fc38 copr_base 442 k libassuan i686 2.5.5-5.fc38 copr_base 69 k libattr i686 2.5.1-5.fc38 copr_base 19 k libb2 i686 0.98.1-7.fc38 copr_base 29 k libblkid i686 2.38.1-3.fc38 local 116 k libbrotli i686 1.0.9-9.fc38 copr_base 318 k libcap i686 2.48-5.fc38 copr_base 69 k libcap-ng i686 0.8.3-4.fc38 copr_base 33 k libcom_err i686 1.46.5-3.fc37 local 26 k libcomps i686 0.1.18-4.fc38 copr_base 84 k libcurl i686 7.87.0-1.fc38 copr_base 327 k libdnf i686 0.68.0-1.fc38 copr_base 713 k libevent i686 2.1.12-7.fc38 copr_base 277 k libffi i686 3.4.4-1.fc38 copr_base 36 k libfsverity i686 1.4-8.fc38 copr_base 21 k libgcc i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 101 k libgcrypt i686 1.10.1-6.fc38 copr_base 479 k libgomp i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 304 k libgpg-error i686 1.46-1.fc38 copr_base 226 k libidn2 i686 2.3.4-1.fc38 copr_base 155 k libksba i686 1.6.3-1.fc38 copr_base 161 k libmodulemd i686 2.14.0-4.fc38 copr_base 242 k libmount i686 2.38.1-3.fc38 local 141 k libnghttp2 i686 1.51.0-1.fc38 copr_base 81 k libnsl2 i686 2.0.0-4.fc38 copr_base 32 k libpsl i686 0.21.1-6.fc38 copr_base 66 k librepo i686 1.15.1-1.fc38 copr_base 102 k libreport-filesystem noarch 2.17.6-1.fc38 copr_base 14 k libselinux i686 3.4-6.fc38 copr_base 92 k libsemanage i686 3.4-6.fc38 copr_base 129 k libsepol i686 3.4-4.fc38 copr_base 337 k libsigsegv i686 2.14-3.fc38 copr_base 28 k libsmartcols i686 2.38.1-3.fc38 local 65 k libsolv i686 0.7.22-3.fc38 copr_base 426 k libssh i686 0.10.4-2.fc38 copr_base 223 k libssh-config noarch 0.10.4-2.fc38 copr_base 9.3 k libstdc++ i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 857 k libtasn1 i686 4.19.0-1.fc38 copr_base 77 k libtirpc i686 1.3.3-0.fc38 copr_base 101 k libunistring i686 1.0-2.fc38 copr_base 549 k libuuid i686 2.38.1-3.fc38 local 28 k libverto i686 0.3.2-4.fc38 copr_base 22 k libxcrypt i686 4.4.33-5.fc38 copr_base 124 k libxml2 i686 2.10.3-2.fc38 copr_base 744 k libyaml i686 0.2.5-8.fc38 copr_base 62 k libzstd i686 1.5.2-3.fc37 local 274 k lua-libs i686 5.4.4-6.fc38 copr_base 149 k lz4-libs i686 1.9.3-5.fc38 copr_base 72 k mpdecimal i686 2.5.1-4.fc38 copr_base 107 k mpfr i686 4.1.1-2.fc38 copr_base 637 k ncurses-base noarch 6.3-5.20221126.fc38 copr_base 62 k ncurses-libs i686 6.3-5.20221126.fc38 copr_base 351 k nettle i686 3.8-2.fc38 copr_base 426 k npth i686 1.6-10.fc38 copr_base 25 k openldap i686 2.6.3-1.fc38 copr_base 274 k openssl-libs i686 1:3.0.5-6.fc38 copr_base 2.1 M p11-kit i686 0.24.1-5.fc38 copr_base 335 k p11-kit-trust i686 0.24.1-5.fc38 copr_base 136 k pcre2 i686 10.40-1.fc38.1 copr_base 235 k pcre2-syntax noarch 10.40-1.fc38.1 copr_base 143 k popt i686 1.19-1.fc38 copr_base 62 k publicsuffix-list-dafsa noarch 20221208-1.fc38 local 59 k python-pip-wheel noarch 22.3.1-1.fc38 local 1.4 M python-setuptools-wheel noarch 65.5.1-1.fc38 local 715 k python3 i686 3.11.1-1.fc38 local 27 k python3-dateutil noarch 1:2.8.2-4.fc37 local 350 k python3-dbus i686 1.3.2-1.fc38 copr_base 151 k python3-distro noarch 1.8.0-1.fc38 local 45 k python3-dnf noarch 4.14.0-1.fc38 local 567 k python3-dnf-plugins-core noarch 4.3.1-1.fc38 local 263 k python3-gpg i686 1.17.1-3.fc38 copr_base 277 k python3-hawkey i686 0.68.0-1.fc38 copr_base 113 k python3-libcomps i686 0.1.18-4.fc38 copr_base 52 k python3-libdnf i686 0.68.0-1.fc38 copr_base 838 k python3-libs i686 3.11.1-1.fc38 local 9.3 M python3-rpm i686 4.18.0-8.fc38 local 95 k python3-six noarch 1.16.0-8.fc37 local 42 k readline i686 8.2-2.fc38 local 218 k rpm i686 4.18.0-8.fc38 local 543 k rpm-build-libs i686 4.18.0-8.fc38 local 102 k rpm-libs i686 4.18.0-8.fc38 local 341 k rpm-sequoia i686 1.2.0-1.fc38 local 924 k rpm-sign-libs i686 4.18.0-8.fc38 local 27 k sed i686 4.8-11.fc37 local 300 k setup noarch 2.14.3-1.fc38 local 146 k shadow-utils i686 2:4.13-3.fc38 local 1.2 M sqlite-libs i686 3.40.0-1.fc38 local 705 k systemd-libs i686 252.4-598.fc38 local 662 k tpm2-tss i686 4.0.0-0.1.rc2.fc38 local 603 k tzdata noarch 2022g-1.fc38 local 432 k xz-libs i686 5.2.9-1.fc38 local 101 k zchunk-libs i686 1.2.3-1.fc38 local 54 k zlib i686 1.2.13-1.fc38 local 92 k Transaction Summary ========================================================================================================================= Install 137 Packages Total download size: 57 M Installed size: 198 M Downloading Packages: (1/137): bzip2-libs-1.0.8-12.fc38.i686.rpm 435 kB/s | 42 kB 00:00 (2/137): alternatives-1.21-1.fc38.i686.rpm 382 kB/s | 39 kB 00:00 (3/137): bash-5.2.9-3.fc38.i686.rpm 11 MB/s | 1.8 MB 00:00 (4/137): coreutils-9.1-8.fc38.i686.rpm 16 MB/s | 1.1 MB 00:00 (5/137): coreutils-common-9.1-8.fc38.i686.rpm 18 MB/s | 2.0 MB 00:00 (6/137): curl-7.87.0-1.fc38.i686.rpm 6.1 MB/s | 347 kB 00:00 (7/137): cyrus-sasl-lib-2.1.28-8.fc38.i686.rpm 17 MB/s | 858 kB 00:00 (8/137): dbus-libs-1.14.4-1.fc38.i686.rpm 13 MB/s | 167 kB 00:00 (9/137): elfutils-default-yama-scope-0.188-3.fc 1.1 MB/s | 16 kB 00:00 (10/137): elfutils-libelf-0.188-3.fc38.i686.rpm 13 MB/s | 204 kB 00:00 (11/137): elfutils-libs-0.188-3.fc38.i686.rpm 21 MB/s | 287 kB 00:00 (12/137): expat-2.5.0-1.fc38.i686.rpm 8.0 MB/s | 115 kB 00:00 (13/137): file-libs-5.42-4.fc38.i686.rpm 20 MB/s | 684 kB 00:00 (14/137): findutils-4.9.0-2.fc38.i686.rpm 21 MB/s | 494 kB 00:00 (15/137): gawk-5.1.1-4.fc38.i686.rpm 30 MB/s | 1.0 MB 00:00 (16/137): gdbm-libs-1.23-2.fc38.i686.rpm 5.0 MB/s | 60 kB 00:00 (17/137): glib2-2.74.1-2.fc38.i686.rpm 43 MB/s | 2.8 MB 00:00 (18/137): gmp-6.2.1-3.fc38.i686.rpm 5.6 MB/s | 306 kB 00:00 (19/137): gnupg2-2.3.8-1.fc38.i686.rpm 34 MB/s | 2.6 MB 00:00 (20/137): gpgme-1.17.1-3.fc38.i686.rpm 6.1 MB/s | 219 kB 00:00 (21/137): gnutls-3.7.8-9.fc38.i686.rpm 29 MB/s | 1.1 MB 00:00 (22/137): grep-3.8-1.fc38.i686.rpm 20 MB/s | 289 kB 00:00 (23/137): ima-evm-utils-1.4-6.fc38.i686.rpm 6.4 MB/s | 63 kB 00:00 (24/137): json-c-0.16-3.fc38.i686.rpm 4.7 MB/s | 44 kB 00:00 (25/137): keyutils-libs-1.6.1-5.fc38.i686.rpm 3.4 MB/s | 32 kB 00:00 (26/137): krb5-libs-1.20.1-3.fc38.i686.rpm 39 MB/s | 764 kB 00:00 (27/137): libacl-2.3.1-4.fc38.i686.rpm 1.3 MB/s | 25 kB 00:00 (28/137): libarchive-3.6.1-3.fc38.i686.rpm 21 MB/s | 442 kB 00:00 (29/137): libassuan-2.5.5-5.fc38.i686.rpm 7.0 MB/s | 69 kB 00:00 (30/137): libattr-2.5.1-5.fc38.i686.rpm 1.9 MB/s | 19 kB 00:00 (31/137): libb2-0.98.1-7.fc38.i686.rpm 2.8 MB/s | 29 kB 00:00 (32/137): libbrotli-1.0.9-9.fc38.i686.rpm 27 MB/s | 318 kB 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2.3 MB/s | 54 kB 00:00 (137/137): python3-libs-3.11.1-1.fc38.i686.rpm 27 MB/s | 9.3 MB 00:00 -------------------------------------------------------------------------------- Total 37 MB/s | 57 MB 00:01 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.18-2.fc37.i686 1/1 Preparing : 1/1 Installing : crypto-policies-20221215-1.gita4c31a3.fc38.noarc 1/137 Running scriptlet: crypto-policies-20221215-1.gita4c31a3.fc38.noarc 1/137 Installing : tzdata-2022g-1.fc38.noarch 2/137 Installing : fedora-release-identity-basic-38-0.6.noarch 3/137 Installing : python-setuptools-wheel-65.5.1-1.fc38.noarch 4/137 Installing : publicsuffix-list-dafsa-20221208-1.fc38.noarch 5/137 Installing : fedora-gpg-keys-38-0.3.noarch 6/137 Installing : fedora-release-38-0.6.noarch 7/137 Installing : fedora-release-common-38-0.6.noarch 8/137 Installing : fedora-repos-rawhide-38-0.3.noarch 9/137 Installing : fedora-repos-38-0.3.noarch 10/137 Installing : setup-2.14.3-1.fc38.noarch 11/137 Running scriptlet: setup-2.14.3-1.fc38.noarch 11/137 Installing : filesystem-3.18-2.fc37.i686 12/137 Installing : basesystem-11-14.fc37.noarch 13/137 Installing : pcre2-syntax-10.40-1.fc38.1.noarch 14/137 Installing : 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ca-certificates-2022.2.54-5.fc37.noarch 137/137 Running scriptlet: rpm-4.18.0-8.fc38.i686 137/137 Verifying : alternatives-1.21-1.fc38.i686 1/137 Verifying : bash-5.2.9-3.fc38.i686 2/137 Verifying : bzip2-libs-1.0.8-12.fc38.i686 3/137 Verifying : coreutils-9.1-8.fc38.i686 4/137 Verifying : coreutils-common-9.1-8.fc38.i686 5/137 Verifying : curl-7.87.0-1.fc38.i686 6/137 Verifying : cyrus-sasl-lib-2.1.28-8.fc38.i686 7/137 Verifying : dbus-libs-1:1.14.4-1.fc38.i686 8/137 Verifying : elfutils-default-yama-scope-0.188-3.fc38.noarch 9/137 Verifying : elfutils-libelf-0.188-3.fc38.i686 10/137 Verifying : elfutils-libs-0.188-3.fc38.i686 11/137 Verifying : expat-2.5.0-1.fc38.i686 12/137 Verifying : file-libs-5.42-4.fc38.i686 13/137 Verifying : findutils-1:4.9.0-2.fc38.i686 14/137 Verifying : gawk-5.1.1-4.fc38.i686 15/137 Verifying : gdbm-libs-1:1.23-2.fc38.i686 16/137 Verifying : glib2-2.74.1-2.fc38.i686 17/137 Verifying : gmp-1:6.2.1-3.fc38.i686 18/137 Verifying : gnupg2-2.3.8-1.fc38.i686 19/137 Verifying : gnutls-3.7.8-9.fc38.i686 20/137 Verifying : gpgme-1.17.1-3.fc38.i686 21/137 Verifying : grep-3.8-1.fc38.i686 22/137 Verifying : ima-evm-utils-1.4-6.fc38.i686 23/137 Verifying : json-c-0.16-3.fc38.i686 24/137 Verifying : keyutils-libs-1.6.1-5.fc38.i686 25/137 Verifying : krb5-libs-1.20.1-3.fc38.i686 26/137 Verifying : libacl-2.3.1-4.fc38.i686 27/137 Verifying : libarchive-3.6.1-3.fc38.i686 28/137 Verifying : libassuan-2.5.5-5.fc38.i686 29/137 Verifying : libattr-2.5.1-5.fc38.i686 30/137 Verifying : libb2-0.98.1-7.fc38.i686 31/137 Verifying : libbrotli-1.0.9-9.fc38.i686 32/137 Verifying : libcap-2.48-5.fc38.i686 33/137 Verifying : libcap-ng-0.8.3-4.fc38.i686 34/137 Verifying : libcomps-0.1.18-4.fc38.i686 35/137 Verifying : libcurl-7.87.0-1.fc38.i686 36/137 Verifying : libdnf-0.68.0-1.fc38.i686 37/137 Verifying : libevent-2.1.12-7.fc38.i686 38/137 Verifying : libffi-3.4.4-1.fc38.i686 39/137 Verifying : libfsverity-1.4-8.fc38.i686 40/137 Verifying : libgcrypt-1.10.1-6.fc38.i686 41/137 Verifying : libgpg-error-1.46-1.fc38.i686 42/137 Verifying : libidn2-2.3.4-1.fc38.i686 43/137 Verifying : libksba-1.6.3-1.fc38.i686 44/137 Verifying : libmodulemd-2.14.0-4.fc38.i686 45/137 Verifying : libnghttp2-1.51.0-1.fc38.i686 46/137 Verifying : libnsl2-2.0.0-4.fc38.i686 47/137 Verifying : libpsl-0.21.1-6.fc38.i686 48/137 Verifying : librepo-1.15.1-1.fc38.i686 49/137 Verifying : libreport-filesystem-2.17.6-1.fc38.noarch 50/137 Verifying : libselinux-3.4-6.fc38.i686 51/137 Verifying : libsemanage-3.4-6.fc38.i686 52/137 Verifying : libsepol-3.4-4.fc38.i686 53/137 Verifying : libsigsegv-2.14-3.fc38.i686 54/137 Verifying : libsolv-0.7.22-3.fc38.i686 55/137 Verifying : libssh-0.10.4-2.fc38.i686 56/137 Verifying : libssh-config-0.10.4-2.fc38.noarch 57/137 Verifying : libtasn1-4.19.0-1.fc38.i686 58/137 Verifying : libtirpc-1.3.3-0.fc38.i686 59/137 Verifying : libunistring-1.0-2.fc38.i686 60/137 Verifying : libverto-0.3.2-4.fc38.i686 61/137 Verifying : libxcrypt-4.4.33-5.fc38.i686 62/137 Verifying : libxml2-2.10.3-2.fc38.i686 63/137 Verifying : libyaml-0.2.5-8.fc38.i686 64/137 Verifying : lua-libs-5.4.4-6.fc38.i686 65/137 Verifying : lz4-libs-1.9.3-5.fc38.i686 66/137 Verifying : mpdecimal-2.5.1-4.fc38.i686 67/137 Verifying : mpfr-4.1.1-2.fc38.i686 68/137 Verifying : ncurses-base-6.3-5.20221126.fc38.noarch 69/137 Verifying : ncurses-libs-6.3-5.20221126.fc38.i686 70/137 Verifying : nettle-3.8-2.fc38.i686 71/137 Verifying : npth-1.6-10.fc38.i686 72/137 Verifying : openldap-2.6.3-1.fc38.i686 73/137 Verifying : openssl-libs-1:3.0.5-6.fc38.i686 74/137 Verifying : p11-kit-0.24.1-5.fc38.i686 75/137 Verifying : p11-kit-trust-0.24.1-5.fc38.i686 76/137 Verifying : pcre2-10.40-1.fc38.1.i686 77/137 Verifying : pcre2-syntax-10.40-1.fc38.1.noarch 78/137 Verifying : popt-1.19-1.fc38.i686 79/137 Verifying : python3-dbus-1.3.2-1.fc38.i686 80/137 Verifying : python3-gpg-1.17.1-3.fc38.i686 81/137 Verifying : python3-hawkey-0.68.0-1.fc38.i686 82/137 Verifying : python3-libcomps-0.1.18-4.fc38.i686 83/137 Verifying : python3-libdnf-0.68.0-1.fc38.i686 84/137 Verifying : libgcc-13.0.0-0.4.fc38.i686 85/137 Verifying : libgomp-13.0.0-0.4.fc38.i686 86/137 Verifying : libstdc++-13.0.0-0.4.fc38.i686 87/137 Verifying : audit-libs-3.0.9-2.fc38.i686 88/137 Verifying : basesystem-11-14.fc37.noarch 89/137 Verifying : ca-certificates-2022.2.54-5.fc37.noarch 90/137 Verifying : crypto-policies-20221215-1.gita4c31a3.fc38.noarc 91/137 Verifying : dnf-4.14.0-1.fc38.noarch 92/137 Verifying : dnf-data-4.14.0-1.fc38.noarch 93/137 Verifying : dnf-plugins-core-4.3.1-1.fc38.noarch 94/137 Verifying : fedora-gpg-keys-38-0.3.noarch 95/137 Verifying : fedora-release-38-0.6.noarch 96/137 Verifying : fedora-release-common-38-0.6.noarch 97/137 Verifying : fedora-release-identity-basic-38-0.6.noarch 98/137 Verifying : fedora-repos-38-0.3.noarch 99/137 Verifying : fedora-repos-rawhide-38-0.3.noarch 100/137 Verifying : filesystem-3.18-2.fc37.i686 101/137 Verifying : glibc-2.36.9000-19.fc38.i686 102/137 Verifying : glibc-common-2.36.9000-19.fc38.i686 103/137 Verifying : glibc-minimal-langpack-2.36.9000-19.fc38.i686 104/137 Verifying : libblkid-2.38.1-3.fc38.i686 105/137 Verifying : libcom_err-1.46.5-3.fc37.i686 106/137 Verifying : libmount-2.38.1-3.fc38.i686 107/137 Verifying : libsmartcols-2.38.1-3.fc38.i686 108/137 Verifying : libuuid-2.38.1-3.fc38.i686 109/137 Verifying : libzstd-1.5.2-3.fc37.i686 110/137 Verifying : publicsuffix-list-dafsa-20221208-1.fc38.noarch 111/137 Verifying : python-pip-wheel-22.3.1-1.fc38.noarch 112/137 Verifying : python-setuptools-wheel-65.5.1-1.fc38.noarch 113/137 Verifying : python3-3.11.1-1.fc38.i686 114/137 Verifying : python3-dateutil-1:2.8.2-4.fc37.noarch 115/137 Verifying : python3-distro-1.8.0-1.fc38.noarch 116/137 Verifying : python3-dnf-4.14.0-1.fc38.noarch 117/137 Verifying : python3-dnf-plugins-core-4.3.1-1.fc38.noarch 118/137 Verifying : python3-libs-3.11.1-1.fc38.i686 119/137 Verifying : python3-rpm-4.18.0-8.fc38.i686 120/137 Verifying : python3-six-1.16.0-8.fc37.noarch 121/137 Verifying : readline-8.2-2.fc38.i686 122/137 Verifying : rpm-4.18.0-8.fc38.i686 123/137 Verifying : rpm-build-libs-4.18.0-8.fc38.i686 124/137 Verifying : rpm-libs-4.18.0-8.fc38.i686 125/137 Verifying : rpm-sequoia-1.2.0-1.fc38.i686 126/137 Verifying : rpm-sign-libs-4.18.0-8.fc38.i686 127/137 Verifying : sed-4.8-11.fc37.i686 128/137 Verifying : setup-2.14.3-1.fc38.noarch 129/137 Verifying : shadow-utils-2:4.13-3.fc38.i686 130/137 Verifying : sqlite-libs-3.40.0-1.fc38.i686 131/137 Verifying : systemd-libs-252.4-598.fc38.i686 132/137 Verifying : tpm2-tss-4.0.0-0.1.rc2.fc38.i686 133/137 Verifying : tzdata-2022g-1.fc38.noarch 134/137 Verifying : xz-libs-5.2.9-1.fc38.i686 135/137 Verifying : zchunk-libs-1.2.3-1.fc38.i686 136/137 Verifying : zlib-1.2.13-1.fc38.i686 137/137 Installed products updated. Installed: alternatives-1.21-1.fc38.i686 audit-libs-3.0.9-2.fc38.i686 basesystem-11-14.fc37.noarch bash-5.2.9-3.fc38.i686 bzip2-libs-1.0.8-12.fc38.i686 ca-certificates-2022.2.54-5.fc37.noarch coreutils-9.1-8.fc38.i686 coreutils-common-9.1-8.fc38.i686 crypto-policies-20221215-1.gita4c31a3.fc38.noarch curl-7.87.0-1.fc38.i686 cyrus-sasl-lib-2.1.28-8.fc38.i686 dbus-libs-1:1.14.4-1.fc38.i686 dnf-4.14.0-1.fc38.noarch dnf-data-4.14.0-1.fc38.noarch dnf-plugins-core-4.3.1-1.fc38.noarch elfutils-default-yama-scope-0.188-3.fc38.noarch elfutils-libelf-0.188-3.fc38.i686 elfutils-libs-0.188-3.fc38.i686 expat-2.5.0-1.fc38.i686 fedora-gpg-keys-38-0.3.noarch fedora-release-38-0.6.noarch fedora-release-common-38-0.6.noarch fedora-release-identity-basic-38-0.6.noarch fedora-repos-38-0.3.noarch fedora-repos-rawhide-38-0.3.noarch file-libs-5.42-4.fc38.i686 filesystem-3.18-2.fc37.i686 findutils-1:4.9.0-2.fc38.i686 gawk-5.1.1-4.fc38.i686 gdbm-libs-1:1.23-2.fc38.i686 glib2-2.74.1-2.fc38.i686 glibc-2.36.9000-19.fc38.i686 glibc-common-2.36.9000-19.fc38.i686 glibc-minimal-langpack-2.36.9000-19.fc38.i686 gmp-1:6.2.1-3.fc38.i686 gnupg2-2.3.8-1.fc38.i686 gnutls-3.7.8-9.fc38.i686 gpgme-1.17.1-3.fc38.i686 grep-3.8-1.fc38.i686 ima-evm-utils-1.4-6.fc38.i686 json-c-0.16-3.fc38.i686 keyutils-libs-1.6.1-5.fc38.i686 krb5-libs-1.20.1-3.fc38.i686 libacl-2.3.1-4.fc38.i686 libarchive-3.6.1-3.fc38.i686 libassuan-2.5.5-5.fc38.i686 libattr-2.5.1-5.fc38.i686 libb2-0.98.1-7.fc38.i686 libblkid-2.38.1-3.fc38.i686 libbrotli-1.0.9-9.fc38.i686 libcap-2.48-5.fc38.i686 libcap-ng-0.8.3-4.fc38.i686 libcom_err-1.46.5-3.fc37.i686 libcomps-0.1.18-4.fc38.i686 libcurl-7.87.0-1.fc38.i686 libdnf-0.68.0-1.fc38.i686 libevent-2.1.12-7.fc38.i686 libffi-3.4.4-1.fc38.i686 libfsverity-1.4-8.fc38.i686 libgcc-13.0.0-0.4.fc38.i686 libgcrypt-1.10.1-6.fc38.i686 libgomp-13.0.0-0.4.fc38.i686 libgpg-error-1.46-1.fc38.i686 libidn2-2.3.4-1.fc38.i686 libksba-1.6.3-1.fc38.i686 libmodulemd-2.14.0-4.fc38.i686 libmount-2.38.1-3.fc38.i686 libnghttp2-1.51.0-1.fc38.i686 libnsl2-2.0.0-4.fc38.i686 libpsl-0.21.1-6.fc38.i686 librepo-1.15.1-1.fc38.i686 libreport-filesystem-2.17.6-1.fc38.noarch libselinux-3.4-6.fc38.i686 libsemanage-3.4-6.fc38.i686 libsepol-3.4-4.fc38.i686 libsigsegv-2.14-3.fc38.i686 libsmartcols-2.38.1-3.fc38.i686 libsolv-0.7.22-3.fc38.i686 libssh-0.10.4-2.fc38.i686 libssh-config-0.10.4-2.fc38.noarch libstdc++-13.0.0-0.4.fc38.i686 libtasn1-4.19.0-1.fc38.i686 libtirpc-1.3.3-0.fc38.i686 libunistring-1.0-2.fc38.i686 libuuid-2.38.1-3.fc38.i686 libverto-0.3.2-4.fc38.i686 libxcrypt-4.4.33-5.fc38.i686 libxml2-2.10.3-2.fc38.i686 libyaml-0.2.5-8.fc38.i686 libzstd-1.5.2-3.fc37.i686 lua-libs-5.4.4-6.fc38.i686 lz4-libs-1.9.3-5.fc38.i686 mpdecimal-2.5.1-4.fc38.i686 mpfr-4.1.1-2.fc38.i686 ncurses-base-6.3-5.20221126.fc38.noarch ncurses-libs-6.3-5.20221126.fc38.i686 nettle-3.8-2.fc38.i686 npth-1.6-10.fc38.i686 openldap-2.6.3-1.fc38.i686 openssl-libs-1:3.0.5-6.fc38.i686 p11-kit-0.24.1-5.fc38.i686 p11-kit-trust-0.24.1-5.fc38.i686 pcre2-10.40-1.fc38.1.i686 pcre2-syntax-10.40-1.fc38.1.noarch popt-1.19-1.fc38.i686 publicsuffix-list-dafsa-20221208-1.fc38.noarch python-pip-wheel-22.3.1-1.fc38.noarch python-setuptools-wheel-65.5.1-1.fc38.noarch python3-3.11.1-1.fc38.i686 python3-dateutil-1:2.8.2-4.fc37.noarch python3-dbus-1.3.2-1.fc38.i686 python3-distro-1.8.0-1.fc38.noarch python3-dnf-4.14.0-1.fc38.noarch python3-dnf-plugins-core-4.3.1-1.fc38.noarch python3-gpg-1.17.1-3.fc38.i686 python3-hawkey-0.68.0-1.fc38.i686 python3-libcomps-0.1.18-4.fc38.i686 python3-libdnf-0.68.0-1.fc38.i686 python3-libs-3.11.1-1.fc38.i686 python3-rpm-4.18.0-8.fc38.i686 python3-six-1.16.0-8.fc37.noarch readline-8.2-2.fc38.i686 rpm-4.18.0-8.fc38.i686 rpm-build-libs-4.18.0-8.fc38.i686 rpm-libs-4.18.0-8.fc38.i686 rpm-sequoia-1.2.0-1.fc38.i686 rpm-sign-libs-4.18.0-8.fc38.i686 sed-4.8-11.fc37.i686 setup-2.14.3-1.fc38.noarch shadow-utils-2:4.13-3.fc38.i686 sqlite-libs-3.40.0-1.fc38.i686 systemd-libs-252.4-598.fc38.i686 tpm2-tss-4.0.0-0.1.rc2.fc38.i686 tzdata-2022g-1.fc38.noarch xz-libs-5.2.9-1.fc38.i686 zchunk-libs-1.2.3-1.fc38.i686 zlib-1.2.13-1.fc38.i686 Complete! Finish(bootstrap): dnf install 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-i686-1672139028.021383/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 Mock Version: 3.5 INFO: Mock Version: 3.5 Start: dnf install No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 11 kB/s | 3.0 kB 00:00 Copr repository 34 MB/s | 31 MB 00:00 Additional repo https_jakub_fedorapeople_org_fe 9.8 kB/s | 3.0 kB 00:00 local 14 kB/s | 3.8 kB 00:00 Dependencies resolved. ========================================================================================================================= Package Arch Version Repository Size ========================================================================================================================= Installing group/module packages: bash i686 5.2.9-3.fc38 copr_base 1.8 M bzip2 i686 1.0.8-12.fc38 copr_base 53 k coreutils i686 9.1-8.fc38 copr_base 1.1 M cpio i686 2.13-13.fc38 copr_base 274 k diffutils i686 3.8-3.fc38 copr_base 375 k fedora-release noarch 38-0.6 local 11 k findutils i686 1:4.9.0-2.fc38 copr_base 494 k gawk i686 5.1.1-4.fc38 copr_base 1.0 M glibc-minimal-langpack i686 2.36.9000-19.fc38 local 30 k grep i686 3.8-1.fc38 copr_base 289 k gzip i686 1.12-2.fc38 copr_base 158 k info i686 7.0.1-1.fc38 local 183 k patch i686 2.7.6-17.fc38 copr_base 138 k redhat-rpm-config noarch 235-1.fc38 local 74 k rpm-build i686 4.18.0-8.fc38 local 69 k sed i686 4.8-11.fc37 local 300 k shadow-utils i686 2:4.13-3.fc38 local 1.2 M tar i686 2:1.34-5.fc38 local 892 k unzip i686 6.0-58.fc38 local 177 k util-linux i686 2.38.1-3.fc38 local 2.3 M which i686 2.21-36.fc38 local 42 k xz i686 5.2.9-1.fc38 local 300 k Installing dependencies: alternatives i686 1.21-1.fc38 copr_base 39 k ansible-srpm-macros noarch 1-8.1.fc38 local 8.6 k audit-libs i686 3.0.9-2.fc38 local 122 k authselect i686 1.4.2-1.fc38 copr_base 141 k authselect-libs i686 1.4.2-1.fc38 copr_base 239 k basesystem noarch 11-14.fc37 local 7.0 k binutils i686 2.39-6.fc38 copr_base 5.6 M binutils-gold i686 2.39-6.fc38 copr_base 853 k bzip2-libs i686 1.0.8-12.fc38 copr_base 42 k ca-certificates noarch 2022.2.54-5.fc37 local 829 k coreutils-common i686 9.1-8.fc38 copr_base 2.0 M cracklib i686 2.9.7-30.fc38 copr_base 82 k crypto-policies noarch 20221215-1.gita4c31a3.fc38 local 63 k curl i686 7.87.0-1.fc38 copr_base 347 k cyrus-sasl-lib i686 2.1.28-8.fc38 copr_base 858 k debugedit i686 5.0-5.fc37 local 78 k dwz i686 0.15-1.fc38 copr_base 144 k ed i686 1.18-2.fc38 copr_base 78 k efi-srpm-macros noarch 5-6.fc37 local 22 k elfutils i686 0.188-3.fc38 copr_base 543 k elfutils-debuginfod-client i686 0.188-3.fc38 copr_base 41 k elfutils-default-yama-scope noarch 0.188-3.fc38 copr_base 16 k elfutils-libelf i686 0.188-3.fc38 copr_base 204 k elfutils-libs i686 0.188-3.fc38 copr_base 287 k fedora-gpg-keys noarch 38-0.3 local 115 k fedora-release-common noarch 38-0.6 local 21 k fedora-release-identity-basic noarch 38-0.6 local 11 k fedora-repos noarch 38-0.3 local 10 k fedora-repos-rawhide noarch 38-0.3 local 9.7 k file i686 5.42-4.fc38 copr_base 49 k file-libs i686 5.42-4.fc38 copr_base 684 k filesystem i686 3.18-2.fc37 local 1.1 M fonts-srpm-macros noarch 1:2.0.5-10.fc38 local 26 k fpc-srpm-macros noarch 1.3-6.fc37 local 7.7 k gdb-minimal i686 12.1-10.fc38 local 3.9 M gdbm-libs i686 1:1.23-2.fc38 copr_base 60 k ghc-srpm-macros noarch 1.5.0-7.fc37 local 7.8 k glibc i686 2.36.9000-19.fc38 local 1.9 M glibc-common i686 2.36.9000-19.fc38 local 315 k glibc-gconv-extra i686 2.36.9000-19.fc38 local 1.6 M gmp i686 1:6.2.1-3.fc38 copr_base 306 k gnat-srpm-macros noarch 4-16.fc37 local 8.3 k go-srpm-macros noarch 3.2.0-1.fc38 local 27 k jansson i686 2.13.1-5.fc38 copr_base 47 k kernel-srpm-macros noarch 1.0-15.fc37 local 9.4 k keyutils-libs i686 1.6.1-5.fc38 copr_base 32 k krb5-libs i686 1.20.1-3.fc38 copr_base 764 k libacl i686 2.3.1-4.fc38 copr_base 25 k libarchive i686 3.6.1-3.fc38 copr_base 442 k libattr i686 2.5.1-5.fc38 copr_base 19 k libblkid i686 2.38.1-3.fc38 local 116 k libbrotli i686 1.0.9-9.fc38 copr_base 318 k libcap i686 2.48-5.fc38 copr_base 69 k libcap-ng i686 0.8.3-4.fc38 copr_base 33 k libcom_err i686 1.46.5-3.fc37 local 26 k libcurl i686 7.87.0-1.fc38 copr_base 327 k libdb i686 5.3.28-54.fc38 copr_base 823 k libeconf i686 0.4.0-4.fc38 copr_base 29 k libevent i686 2.1.12-7.fc38 copr_base 277 k libfdisk i686 2.38.1-3.fc38 local 173 k libffi i686 3.4.4-1.fc38 copr_base 36 k libgcc i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 101 k libgomp i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 304 k libidn2 i686 2.3.4-1.fc38 copr_base 155 k libmount i686 2.38.1-3.fc38 local 141 k libnghttp2 i686 1.51.0-1.fc38 copr_base 81 k libnsl2 i686 2.0.0-4.fc38 copr_base 32 k libpkgconf i686 1.8.0-3.fc38 copr_base 39 k libpsl i686 0.21.1-6.fc38 copr_base 66 k libpwquality i686 1.4.5-1.fc38 local 108 k libselinux i686 3.4-6.fc38 copr_base 92 k libsemanage i686 3.4-6.fc38 copr_base 129 k libsepol i686 3.4-4.fc38 copr_base 337 k libsigsegv i686 2.14-3.fc38 copr_base 28 k libsmartcols i686 2.38.1-3.fc38 local 65 k libssh i686 0.10.4-2.fc38 copr_base 223 k libssh-config noarch 0.10.4-2.fc38 copr_base 9.3 k libstdc++ i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 857 k libtasn1 i686 4.19.0-1.fc38 copr_base 77 k libtirpc i686 1.3.3-0.fc38 copr_base 101 k libunistring i686 1.0-2.fc38 copr_base 549 k libutempter i686 1.2.1-7.fc38 copr_base 27 k libuuid i686 2.38.1-3.fc38 local 28 k libverto i686 0.3.2-4.fc38 copr_base 22 k libxcrypt i686 4.4.33-5.fc38 copr_base 124 k libxml2 i686 2.10.3-2.fc38 copr_base 744 k libzstd i686 1.5.2-3.fc37 local 274 k lua-libs i686 5.4.4-6.fc38 copr_base 149 k lua-srpm-macros noarch 1-7.fc37 local 8.8 k lz4-libs i686 1.9.3-5.fc38 copr_base 72 k mpfr i686 4.1.1-2.fc38 copr_base 637 k ncurses-base noarch 6.3-5.20221126.fc38 copr_base 62 k ncurses-libs i686 6.3-5.20221126.fc38 copr_base 351 k nettle i686 3.8-2.fc38 copr_base 426 k nim-srpm-macros noarch 3-7.fc37 local 8.4 k ocaml-srpm-macros noarch 7-2.fc37 local 13 k openblas-srpm-macros noarch 2-12.fc37 local 7.5 k openldap i686 2.6.3-1.fc38 copr_base 274 k openssl-libs i686 1:3.0.5-6.fc38 copr_base 2.1 M p11-kit i686 0.24.1-5.fc38 copr_base 335 k p11-kit-trust i686 0.24.1-5.fc38 copr_base 136 k package-notes-srpm-macros noarch 0.5-6.fc38 local 11 k pam i686 1.5.2-15.fc38 copr_base 536 k pam-libs i686 1.5.2-15.fc38 copr_base 60 k pcre2 i686 10.40-1.fc38.1 copr_base 235 k pcre2-syntax noarch 10.40-1.fc38.1 copr_base 143 k perl-srpm-macros noarch 1-47.fc38 local 8.2 k pkgconf i686 1.8.0-3.fc38 copr_base 42 k pkgconf-m4 noarch 1.8.0-3.fc38 copr_base 15 k pkgconf-pkg-config i686 1.8.0-3.fc38 copr_base 11 k popt i686 1.19-1.fc38 copr_base 62 k publicsuffix-list-dafsa noarch 20221208-1.fc38 local 59 k python-srpm-macros noarch 3.11-6.fc38 local 25 k qt5-srpm-macros noarch 5.15.7-1.fc38 local 7.9 k readline i686 8.2-2.fc38 local 218 k rpm i686 4.18.0-8.fc38 local 543 k rpm-build-libs i686 4.18.0-8.fc38 local 102 k rpm-libs i686 4.18.0-8.fc38 local 341 k rpm-sequoia i686 1.2.0-1.fc38 local 924 k rpmautospec-rpm-macros noarch 0.3.1-1.fc38 local 8.8 k rust-srpm-macros noarch 23-1.fc38 local 9.4 k setup noarch 2.14.3-1.fc38 local 146 k sqlite-libs i686 3.40.0-1.fc38 local 705 k systemd-libs i686 252.4-598.fc38 local 662 k tzdata noarch 2022g-1.fc38 local 432 k util-linux-core i686 2.38.1-3.fc38 local 467 k xxhash-libs i686 0.8.1-3.fc37 local 59 k xz-libs i686 5.2.9-1.fc38 local 101 k zip i686 3.0-35.fc38 local 263 k zlib i686 1.2.13-1.fc38 local 92 k zstd i686 1.5.2-3.fc37 local 418 k Installing Groups: build Transaction Summary ========================================================================================================================= Install 153 Packages Total size: 53 M Installed size: 179 M Downloading Packages: [SKIPPED] alternatives-1.21-1.fc38.i686.rpm: Already downloaded [SKIPPED] authselect-1.4.2-1.fc38.i686.rpm: Already downloaded [SKIPPED] authselect-libs-1.4.2-1.fc38.i686.rpm: Already downloaded [SKIPPED] bash-5.2.9-3.fc38.i686.rpm: Already downloaded [SKIPPED] binutils-2.39-6.fc38.i686.rpm: Already downloaded [SKIPPED] binutils-gold-2.39-6.fc38.i686.rpm: Already downloaded [SKIPPED] bzip2-1.0.8-12.fc38.i686.rpm: Already downloaded [SKIPPED] bzip2-libs-1.0.8-12.fc38.i686.rpm: Already downloaded [SKIPPED] coreutils-9.1-8.fc38.i686.rpm: Already downloaded [SKIPPED] coreutils-common-9.1-8.fc38.i686.rpm: Already downloaded [SKIPPED] cpio-2.13-13.fc38.i686.rpm: Already downloaded [SKIPPED] cracklib-2.9.7-30.fc38.i686.rpm: Already downloaded [SKIPPED] curl-7.87.0-1.fc38.i686.rpm: Already downloaded [SKIPPED] cyrus-sasl-lib-2.1.28-8.fc38.i686.rpm: Already downloaded [SKIPPED] diffutils-3.8-3.fc38.i686.rpm: Already downloaded [SKIPPED] dwz-0.15-1.fc38.i686.rpm: Already downloaded [SKIPPED] ed-1.18-2.fc38.i686.rpm: Already downloaded [SKIPPED] elfutils-0.188-3.fc38.i686.rpm: Already downloaded [SKIPPED] elfutils-debuginfod-client-0.188-3.fc38.i686.rpm: Already downloaded [SKIPPED] elfutils-default-yama-scope-0.188-3.fc38.noarch.rpm: Already downloaded [SKIPPED] elfutils-libelf-0.188-3.fc38.i686.rpm: Already downloaded [SKIPPED] elfutils-libs-0.188-3.fc38.i686.rpm: Already downloaded [SKIPPED] file-5.42-4.fc38.i686.rpm: Already downloaded [SKIPPED] file-libs-5.42-4.fc38.i686.rpm: Already downloaded [SKIPPED] findutils-4.9.0-2.fc38.i686.rpm: Already downloaded [SKIPPED] gawk-5.1.1-4.fc38.i686.rpm: Already downloaded [SKIPPED] gdbm-libs-1.23-2.fc38.i686.rpm: Already downloaded [SKIPPED] gmp-6.2.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] grep-3.8-1.fc38.i686.rpm: Already downloaded [SKIPPED] gzip-1.12-2.fc38.i686.rpm: Already downloaded [SKIPPED] jansson-2.13.1-5.fc38.i686.rpm: Already downloaded [SKIPPED] keyutils-libs-1.6.1-5.fc38.i686.rpm: Already downloaded [SKIPPED] krb5-libs-1.20.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] libacl-2.3.1-4.fc38.i686.rpm: Already downloaded [SKIPPED] libarchive-3.6.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] libattr-2.5.1-5.fc38.i686.rpm: Already downloaded [SKIPPED] libbrotli-1.0.9-9.fc38.i686.rpm: Already downloaded [SKIPPED] libcap-2.48-5.fc38.i686.rpm: Already downloaded [SKIPPED] libcap-ng-0.8.3-4.fc38.i686.rpm: Already downloaded [SKIPPED] libcurl-7.87.0-1.fc38.i686.rpm: Already downloaded [SKIPPED] libdb-5.3.28-54.fc38.i686.rpm: Already downloaded [SKIPPED] libeconf-0.4.0-4.fc38.i686.rpm: Already downloaded [SKIPPED] libevent-2.1.12-7.fc38.i686.rpm: Already downloaded [SKIPPED] libffi-3.4.4-1.fc38.i686.rpm: Already downloaded [SKIPPED] libidn2-2.3.4-1.fc38.i686.rpm: Already downloaded [SKIPPED] libnghttp2-1.51.0-1.fc38.i686.rpm: Already downloaded [SKIPPED] libnsl2-2.0.0-4.fc38.i686.rpm: Already downloaded [SKIPPED] libpkgconf-1.8.0-3.fc38.i686.rpm: Already downloaded [SKIPPED] libpsl-0.21.1-6.fc38.i686.rpm: Already downloaded [SKIPPED] libselinux-3.4-6.fc38.i686.rpm: Already downloaded [SKIPPED] libsemanage-3.4-6.fc38.i686.rpm: Already downloaded [SKIPPED] libsepol-3.4-4.fc38.i686.rpm: Already downloaded [SKIPPED] libsigsegv-2.14-3.fc38.i686.rpm: Already downloaded [SKIPPED] libssh-0.10.4-2.fc38.i686.rpm: Already downloaded [SKIPPED] libssh-config-0.10.4-2.fc38.noarch.rpm: Already downloaded [SKIPPED] libtasn1-4.19.0-1.fc38.i686.rpm: Already downloaded [SKIPPED] libtirpc-1.3.3-0.fc38.i686.rpm: Already downloaded [SKIPPED] libunistring-1.0-2.fc38.i686.rpm: Already downloaded [SKIPPED] libutempter-1.2.1-7.fc38.i686.rpm: Already downloaded [SKIPPED] libverto-0.3.2-4.fc38.i686.rpm: Already downloaded [SKIPPED] libxcrypt-4.4.33-5.fc38.i686.rpm: Already downloaded [SKIPPED] libxml2-2.10.3-2.fc38.i686.rpm: Already downloaded [SKIPPED] lua-libs-5.4.4-6.fc38.i686.rpm: Already downloaded [SKIPPED] lz4-libs-1.9.3-5.fc38.i686.rpm: Already downloaded [SKIPPED] mpfr-4.1.1-2.fc38.i686.rpm: Already downloaded [SKIPPED] ncurses-base-6.3-5.20221126.fc38.noarch.rpm: Already downloaded [SKIPPED] ncurses-libs-6.3-5.20221126.fc38.i686.rpm: Already downloaded [SKIPPED] nettle-3.8-2.fc38.i686.rpm: Already downloaded [SKIPPED] openldap-2.6.3-1.fc38.i686.rpm: Already downloaded [SKIPPED] openssl-libs-3.0.5-6.fc38.i686.rpm: Already downloaded [SKIPPED] p11-kit-0.24.1-5.fc38.i686.rpm: Already downloaded [SKIPPED] p11-kit-trust-0.24.1-5.fc38.i686.rpm: Already downloaded [SKIPPED] pam-1.5.2-15.fc38.i686.rpm: Already downloaded [SKIPPED] pam-libs-1.5.2-15.fc38.i686.rpm: Already downloaded [SKIPPED] patch-2.7.6-17.fc38.i686.rpm: Already downloaded [SKIPPED] pcre2-10.40-1.fc38.1.i686.rpm: Already downloaded [SKIPPED] pcre2-syntax-10.40-1.fc38.1.noarch.rpm: Already downloaded [SKIPPED] pkgconf-1.8.0-3.fc38.i686.rpm: Already downloaded [SKIPPED] pkgconf-m4-1.8.0-3.fc38.noarch.rpm: Already downloaded [SKIPPED] pkgconf-pkg-config-1.8.0-3.fc38.i686.rpm: Already downloaded [SKIPPED] popt-1.19-1.fc38.i686.rpm: Already downloaded [SKIPPED] libgcc-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] libgomp-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] libstdc++-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] ansible-srpm-macros-1-8.1.fc38.noarch.rpm: Already downloaded [SKIPPED] audit-libs-3.0.9-2.fc38.i686.rpm: Already downloaded [SKIPPED] basesystem-11-14.fc37.noarch.rpm: Already downloaded [SKIPPED] ca-certificates-2022.2.54-5.fc37.noarch.rpm: Already downloaded [SKIPPED] crypto-policies-20221215-1.gita4c31a3.fc38.noarch.rpm: Already downloaded [SKIPPED] debugedit-5.0-5.fc37.i686.rpm: Already downloaded [SKIPPED] efi-srpm-macros-5-6.fc37.noarch.rpm: Already downloaded [SKIPPED] fedora-gpg-keys-38-0.3.noarch.rpm: Already downloaded [SKIPPED] fedora-release-38-0.6.noarch.rpm: Already downloaded [SKIPPED] fedora-release-common-38-0.6.noarch.rpm: Already downloaded [SKIPPED] fedora-release-identity-basic-38-0.6.noarch.rpm: Already downloaded [SKIPPED] fedora-repos-38-0.3.noarch.rpm: Already downloaded [SKIPPED] fedora-repos-rawhide-38-0.3.noarch.rpm: Already downloaded [SKIPPED] filesystem-3.18-2.fc37.i686.rpm: Already downloaded [SKIPPED] fonts-srpm-macros-2.0.5-10.fc38.noarch.rpm: Already downloaded [SKIPPED] fpc-srpm-macros-1.3-6.fc37.noarch.rpm: Already downloaded [SKIPPED] gdb-minimal-12.1-10.fc38.i686.rpm: Already downloaded [SKIPPED] ghc-srpm-macros-1.5.0-7.fc37.noarch.rpm: Already downloaded [SKIPPED] glibc-2.36.9000-19.fc38.i686.rpm: Already downloaded [SKIPPED] glibc-common-2.36.9000-19.fc38.i686.rpm: Already downloaded [SKIPPED] glibc-gconv-extra-2.36.9000-19.fc38.i686.rpm: Already downloaded [SKIPPED] glibc-minimal-langpack-2.36.9000-19.fc38.i686.rpm: Already downloaded [SKIPPED] gnat-srpm-macros-4-16.fc37.noarch.rpm: Already downloaded [SKIPPED] go-srpm-macros-3.2.0-1.fc38.noarch.rpm: Already downloaded [SKIPPED] info-7.0.1-1.fc38.i686.rpm: Already downloaded [SKIPPED] kernel-srpm-macros-1.0-15.fc37.noarch.rpm: Already downloaded [SKIPPED] libblkid-2.38.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] libcom_err-1.46.5-3.fc37.i686.rpm: Already downloaded [SKIPPED] libfdisk-2.38.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] libmount-2.38.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] libpwquality-1.4.5-1.fc38.i686.rpm: Already downloaded [SKIPPED] libsmartcols-2.38.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] libuuid-2.38.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] libzstd-1.5.2-3.fc37.i686.rpm: Already downloaded [SKIPPED] lua-srpm-macros-1-7.fc37.noarch.rpm: Already downloaded [SKIPPED] nim-srpm-macros-3-7.fc37.noarch.rpm: Already downloaded [SKIPPED] ocaml-srpm-macros-7-2.fc37.noarch.rpm: Already downloaded [SKIPPED] openblas-srpm-macros-2-12.fc37.noarch.rpm: Already downloaded [SKIPPED] package-notes-srpm-macros-0.5-6.fc38.noarch.rpm: Already downloaded [SKIPPED] perl-srpm-macros-1-47.fc38.noarch.rpm: Already downloaded [SKIPPED] publicsuffix-list-dafsa-20221208-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python-srpm-macros-3.11-6.fc38.noarch.rpm: Already downloaded [SKIPPED] qt5-srpm-macros-5.15.7-1.fc38.noarch.rpm: Already downloaded [SKIPPED] readline-8.2-2.fc38.i686.rpm: Already downloaded [SKIPPED] redhat-rpm-config-235-1.fc38.noarch.rpm: Already downloaded [SKIPPED] rpm-4.18.0-8.fc38.i686.rpm: Already downloaded [SKIPPED] rpm-build-4.18.0-8.fc38.i686.rpm: Already downloaded [SKIPPED] rpm-build-libs-4.18.0-8.fc38.i686.rpm: Already downloaded [SKIPPED] rpm-libs-4.18.0-8.fc38.i686.rpm: Already downloaded [SKIPPED] rpm-sequoia-1.2.0-1.fc38.i686.rpm: Already downloaded [SKIPPED] rpmautospec-rpm-macros-0.3.1-1.fc38.noarch.rpm: Already downloaded [SKIPPED] rust-srpm-macros-23-1.fc38.noarch.rpm: Already downloaded [SKIPPED] sed-4.8-11.fc37.i686.rpm: Already downloaded [SKIPPED] setup-2.14.3-1.fc38.noarch.rpm: Already downloaded [SKIPPED] shadow-utils-4.13-3.fc38.i686.rpm: Already downloaded [SKIPPED] sqlite-libs-3.40.0-1.fc38.i686.rpm: Already downloaded [SKIPPED] systemd-libs-252.4-598.fc38.i686.rpm: Already downloaded [SKIPPED] tar-1.34-5.fc38.i686.rpm: Already downloaded [SKIPPED] tzdata-2022g-1.fc38.noarch.rpm: Already downloaded [SKIPPED] unzip-6.0-58.fc38.i686.rpm: Already downloaded [SKIPPED] util-linux-2.38.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] util-linux-core-2.38.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] which-2.21-36.fc38.i686.rpm: Already downloaded [SKIPPED] xxhash-libs-0.8.1-3.fc37.i686.rpm: Already downloaded [SKIPPED] xz-5.2.9-1.fc38.i686.rpm: Already downloaded [SKIPPED] xz-libs-5.2.9-1.fc38.i686.rpm: Already downloaded [SKIPPED] zip-3.0-35.fc38.i686.rpm: Already downloaded [SKIPPED] zlib-1.2.13-1.fc38.i686.rpm: Already downloaded [SKIPPED] zstd-1.5.2-3.fc37.i686.rpm: Already downloaded Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.18-2.fc37.i686 1/1 Preparing : 1/1 Installing : crypto-policies-20221215-1.gita4c31a3.fc38.noarc 1/153 Running scriptlet: crypto-policies-20221215-1.gita4c31a3.fc38.noarc 1/153 Installing : fedora-release-identity-basic-38-0.6.noarch 2/153 Installing : tzdata-2022g-1.fc38.noarch 3/153 Installing : rust-srpm-macros-23-1.fc38.noarch 4/153 Installing : qt5-srpm-macros-5.15.7-1.fc38.noarch 5/153 Installing : publicsuffix-list-dafsa-20221208-1.fc38.noarch 6/153 Installing : perl-srpm-macros-1-47.fc38.noarch 7/153 Installing : package-notes-srpm-macros-0.5-6.fc38.noarch 8/153 Installing : openblas-srpm-macros-2-12.fc37.noarch 9/153 Installing : ocaml-srpm-macros-7-2.fc37.noarch 10/153 Installing : nim-srpm-macros-3-7.fc37.noarch 11/153 Installing : kernel-srpm-macros-1.0-15.fc37.noarch 12/153 Installing : gnat-srpm-macros-4-16.fc37.noarch 13/153 Installing : ghc-srpm-macros-1.5.0-7.fc37.noarch 14/153 Installing : fpc-srpm-macros-1.3-6.fc37.noarch 15/153 Installing : fedora-gpg-keys-38-0.3.noarch 16/153 Installing : fedora-release-38-0.6.noarch 17/153 Installing : fedora-release-common-38-0.6.noarch 18/153 Installing : fedora-repos-rawhide-38-0.3.noarch 19/153 Installing : fedora-repos-38-0.3.noarch 20/153 Installing : setup-2.14.3-1.fc38.noarch 21/153 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.14.3-1.fc38.noarch 21/153 Installing : filesystem-3.18-2.fc37.i686 22/153 Installing : basesystem-11-14.fc37.noarch 23/153 Installing : ansible-srpm-macros-1-8.1.fc38.noarch 24/153 Installing : pkgconf-m4-1.8.0-3.fc38.noarch 25/153 Installing : pcre2-syntax-10.40-1.fc38.1.noarch 26/153 Installing : ncurses-base-6.3-5.20221126.fc38.noarch 27/153 Installing : libssh-config-0.10.4-2.fc38.noarch 28/153 Installing : coreutils-common-9.1-8.fc38.i686 29/153 Installing : libgcc-13.0.0-0.4.fc38.i686 30/153 Running scriptlet: libgcc-13.0.0-0.4.fc38.i686 30/153 Installing : ncurses-libs-6.3-5.20221126.fc38.i686 31/153 Installing : glibc-gconv-extra-2.36.9000-19.fc38.i686 32/153 Running scriptlet: glibc-gconv-extra-2.36.9000-19.fc38.i686 32/153 Running scriptlet: glibc-2.36.9000-19.fc38.i686 33/153 Installing : glibc-2.36.9000-19.fc38.i686 33/153 Running scriptlet: glibc-2.36.9000-19.fc38.i686 33/153 Installing : bash-5.2.9-3.fc38.i686 34/153 Running scriptlet: bash-5.2.9-3.fc38.i686 34/153 Installing : glibc-common-2.36.9000-19.fc38.i686 35/153 Installing : glibc-minimal-langpack-2.36.9000-19.fc38.i686 36/153 Installing : zlib-1.2.13-1.fc38.i686 37/153 Installing : xz-libs-5.2.9-1.fc38.i686 38/153 Installing : bzip2-libs-1.0.8-12.fc38.i686 39/153 Installing : elfutils-libelf-0.188-3.fc38.i686 40/153 Installing : gmp-1:6.2.1-3.fc38.i686 41/153 Installing : popt-1.19-1.fc38.i686 42/153 Installing : libstdc++-13.0.0-0.4.fc38.i686 43/153 Installing : libuuid-2.38.1-3.fc38.i686 44/153 Installing : libzstd-1.5.2-3.fc37.i686 45/153 Installing : libblkid-2.38.1-3.fc38.i686 46/153 Installing : libattr-2.5.1-5.fc38.i686 47/153 Installing : libacl-2.3.1-4.fc38.i686 48/153 Installing : libcap-2.48-5.fc38.i686 49/153 Installing : libxcrypt-4.4.33-5.fc38.i686 50/153 Installing : readline-8.2-2.fc38.i686 51/153 Installing : lz4-libs-1.9.3-5.fc38.i686 52/153 Installing : systemd-libs-252.4-598.fc38.i686 53/153 Installing : mpfr-4.1.1-2.fc38.i686 54/153 Installing : dwz-0.15-1.fc38.i686 55/153 Installing : unzip-6.0-58.fc38.i686 56/153 Installing : file-libs-5.42-4.fc38.i686 57/153 Installing : file-5.42-4.fc38.i686 58/153 Installing : sqlite-libs-3.40.0-1.fc38.i686 59/153 Installing : alternatives-1.21-1.fc38.i686 60/153 Installing : libcap-ng-0.8.3-4.fc38.i686 61/153 Installing : audit-libs-3.0.9-2.fc38.i686 62/153 Installing : libeconf-0.4.0-4.fc38.i686 63/153 Installing : pam-libs-1.5.2-15.fc38.i686 64/153 Installing : libsepol-3.4-4.fc38.i686 65/153 Installing : libunistring-1.0-2.fc38.i686 66/153 Installing : libidn2-2.3.4-1.fc38.i686 67/153 Installing : lua-libs-5.4.4-6.fc38.i686 68/153 Installing : pcre2-10.40-1.fc38.1.i686 69/153 Installing : libselinux-3.4-6.fc38.i686 70/153 Installing : sed-4.8-11.fc37.i686 71/153 Installing : grep-3.8-1.fc38.i686 72/153 Installing : findutils-1:4.9.0-2.fc38.i686 73/153 Installing : xz-5.2.9-1.fc38.i686 74/153 Installing : libmount-2.38.1-3.fc38.i686 75/153 Installing : libcom_err-1.46.5-3.fc37.i686 76/153 Installing : libsmartcols-2.38.1-3.fc38.i686 77/153 Installing : elfutils-default-yama-scope-0.188-3.fc38.noarch 78/153 Running scriptlet: elfutils-default-yama-scope-0.188-3.fc38.noarch 78/153 Installing : util-linux-core-2.38.1-3.fc38.i686 79/153 Installing : libsemanage-3.4-6.fc38.i686 80/153 Installing : shadow-utils-2:4.13-3.fc38.i686 81/153 Running scriptlet: libutempter-1.2.1-7.fc38.i686 82/153 Installing : libutempter-1.2.1-7.fc38.i686 82/153 Installing : tar-2:1.34-5.fc38.i686 83/153 Installing : libpsl-0.21.1-6.fc38.i686 84/153 Installing : zip-3.0-35.fc38.i686 85/153 Installing : zstd-1.5.2-3.fc37.i686 86/153 Installing : libfdisk-2.38.1-3.fc38.i686 87/153 Installing : nettle-3.8-2.fc38.i686 88/153 Installing : rpm-sequoia-1.2.0-1.fc38.i686 89/153 Installing : rpm-libs-4.18.0-8.fc38.i686 90/153 Installing : bzip2-1.0.8-12.fc38.i686 91/153 Installing : libxml2-2.10.3-2.fc38.i686 92/153 Installing : ed-1.18-2.fc38.i686 93/153 Installing : patch-2.7.6-17.fc38.i686 94/153 Installing : cpio-2.13-13.fc38.i686 95/153 Installing : diffutils-3.8-3.fc38.i686 96/153 Installing : gdbm-libs-1:1.23-2.fc38.i686 97/153 Installing : cyrus-sasl-lib-2.1.28-8.fc38.i686 98/153 Installing : jansson-2.13.1-5.fc38.i686 99/153 Installing : keyutils-libs-1.6.1-5.fc38.i686 100/153 Installing : libbrotli-1.0.9-9.fc38.i686 101/153 Installing : libdb-5.3.28-54.fc38.i686 102/153 Installing : libffi-3.4.4-1.fc38.i686 103/153 Installing : p11-kit-0.24.1-5.fc38.i686 104/153 Installing : libnghttp2-1.51.0-1.fc38.i686 105/153 Installing : libpkgconf-1.8.0-3.fc38.i686 106/153 Installing : pkgconf-1.8.0-3.fc38.i686 107/153 Installing : pkgconf-pkg-config-1.8.0-3.fc38.i686 108/153 Installing : libsigsegv-2.14-3.fc38.i686 109/153 Installing : gawk-5.1.1-4.fc38.i686 110/153 Installing : libtasn1-4.19.0-1.fc38.i686 111/153 Installing : p11-kit-trust-0.24.1-5.fc38.i686 112/153 Running scriptlet: p11-kit-trust-0.24.1-5.fc38.i686 112/153 Installing : openssl-libs-1:3.0.5-6.fc38.i686 113/153 Installing : coreutils-9.1-8.fc38.i686 114/153 Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch 115/153 Installing : ca-certificates-2022.2.54-5.fc37.noarch 115/153 Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch 115/153 Running scriptlet: authselect-libs-1.4.2-1.fc38.i686 116/153 Installing : authselect-libs-1.4.2-1.fc38.i686 116/153 Installing : gzip-1.12-2.fc38.i686 117/153 Installing : cracklib-2.9.7-30.fc38.i686 118/153 Installing : libpwquality-1.4.5-1.fc38.i686 119/153 Installing : authselect-1.4.2-1.fc38.i686 120/153 Installing : libarchive-3.6.1-3.fc38.i686 121/153 Installing : libevent-2.1.12-7.fc38.i686 122/153 Installing : openldap-2.6.3-1.fc38.i686 123/153 Installing : libverto-0.3.2-4.fc38.i686 124/153 Installing : krb5-libs-1.20.1-3.fc38.i686 125/153 Installing : libtirpc-1.3.3-0.fc38.i686 126/153 Installing : libnsl2-2.0.0-4.fc38.i686 127/153 Installing : pam-1.5.2-15.fc38.i686 128/153 Installing : libssh-0.10.4-2.fc38.i686 129/153 Installing : libcurl-7.87.0-1.fc38.i686 130/153 Installing : elfutils-libs-0.188-3.fc38.i686 131/153 Installing : elfutils-debuginfod-client-0.188-3.fc38.i686 132/153 Installing : binutils-gold-2.39-6.fc38.i686 133/153 Installing : binutils-2.39-6.fc38.i686 134/153 Running scriptlet: binutils-2.39-6.fc38.i686 134/153 Installing : elfutils-0.188-3.fc38.i686 135/153 Installing : curl-7.87.0-1.fc38.i686 136/153 Running scriptlet: rpm-4.18.0-8.fc38.i686 137/153 Installing : rpm-4.18.0-8.fc38.i686 137/153 Installing : efi-srpm-macros-5-6.fc37.noarch 138/153 Installing : lua-srpm-macros-1-7.fc37.noarch 139/153 Installing : rpmautospec-rpm-macros-0.3.1-1.fc38.noarch 140/153 Installing : fonts-srpm-macros-1:2.0.5-10.fc38.noarch 141/153 Installing : go-srpm-macros-3.2.0-1.fc38.noarch 142/153 Installing : python-srpm-macros-3.11-6.fc38.noarch 143/153 Installing : redhat-rpm-config-235-1.fc38.noarch 144/153 Installing : libgomp-13.0.0-0.4.fc38.i686 145/153 Installing : rpm-build-libs-4.18.0-8.fc38.i686 146/153 Installing : xxhash-libs-0.8.1-3.fc37.i686 147/153 Installing : gdb-minimal-12.1-10.fc38.i686 148/153 Installing : debugedit-5.0-5.fc37.i686 149/153 Installing : rpm-build-4.18.0-8.fc38.i686 150/153 Installing : util-linux-2.38.1-3.fc38.i686 151/153 Installing : which-2.21-36.fc38.i686 152/153 Installing : info-7.0.1-1.fc38.i686 153/153 Running scriptlet: filesystem-3.18-2.fc37.i686 153/153 Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch 153/153 Running scriptlet: authselect-libs-1.4.2-1.fc38.i686 153/153 Running scriptlet: rpm-4.18.0-8.fc38.i686 153/153 Running scriptlet: info-7.0.1-1.fc38.i686 153/153 Verifying : alternatives-1.21-1.fc38.i686 1/153 Verifying : authselect-1.4.2-1.fc38.i686 2/153 Verifying : authselect-libs-1.4.2-1.fc38.i686 3/153 Verifying : bash-5.2.9-3.fc38.i686 4/153 Verifying : binutils-2.39-6.fc38.i686 5/153 Verifying : binutils-gold-2.39-6.fc38.i686 6/153 Verifying : bzip2-1.0.8-12.fc38.i686 7/153 Verifying : bzip2-libs-1.0.8-12.fc38.i686 8/153 Verifying : coreutils-9.1-8.fc38.i686 9/153 Verifying : coreutils-common-9.1-8.fc38.i686 10/153 Verifying : cpio-2.13-13.fc38.i686 11/153 Verifying : cracklib-2.9.7-30.fc38.i686 12/153 Verifying : curl-7.87.0-1.fc38.i686 13/153 Verifying : cyrus-sasl-lib-2.1.28-8.fc38.i686 14/153 Verifying : diffutils-3.8-3.fc38.i686 15/153 Verifying : dwz-0.15-1.fc38.i686 16/153 Verifying : ed-1.18-2.fc38.i686 17/153 Verifying : elfutils-0.188-3.fc38.i686 18/153 Verifying : elfutils-debuginfod-client-0.188-3.fc38.i686 19/153 Verifying : elfutils-default-yama-scope-0.188-3.fc38.noarch 20/153 Verifying : elfutils-libelf-0.188-3.fc38.i686 21/153 Verifying : elfutils-libs-0.188-3.fc38.i686 22/153 Verifying : file-5.42-4.fc38.i686 23/153 Verifying : file-libs-5.42-4.fc38.i686 24/153 Verifying : findutils-1:4.9.0-2.fc38.i686 25/153 Verifying : gawk-5.1.1-4.fc38.i686 26/153 Verifying : gdbm-libs-1:1.23-2.fc38.i686 27/153 Verifying : gmp-1:6.2.1-3.fc38.i686 28/153 Verifying : grep-3.8-1.fc38.i686 29/153 Verifying : gzip-1.12-2.fc38.i686 30/153 Verifying : jansson-2.13.1-5.fc38.i686 31/153 Verifying : keyutils-libs-1.6.1-5.fc38.i686 32/153 Verifying : krb5-libs-1.20.1-3.fc38.i686 33/153 Verifying : libacl-2.3.1-4.fc38.i686 34/153 Verifying : libarchive-3.6.1-3.fc38.i686 35/153 Verifying : libattr-2.5.1-5.fc38.i686 36/153 Verifying : libbrotli-1.0.9-9.fc38.i686 37/153 Verifying : libcap-2.48-5.fc38.i686 38/153 Verifying : libcap-ng-0.8.3-4.fc38.i686 39/153 Verifying : libcurl-7.87.0-1.fc38.i686 40/153 Verifying : libdb-5.3.28-54.fc38.i686 41/153 Verifying : libeconf-0.4.0-4.fc38.i686 42/153 Verifying : libevent-2.1.12-7.fc38.i686 43/153 Verifying : libffi-3.4.4-1.fc38.i686 44/153 Verifying : libidn2-2.3.4-1.fc38.i686 45/153 Verifying : libnghttp2-1.51.0-1.fc38.i686 46/153 Verifying : libnsl2-2.0.0-4.fc38.i686 47/153 Verifying : libpkgconf-1.8.0-3.fc38.i686 48/153 Verifying : libpsl-0.21.1-6.fc38.i686 49/153 Verifying : libselinux-3.4-6.fc38.i686 50/153 Verifying : libsemanage-3.4-6.fc38.i686 51/153 Verifying : libsepol-3.4-4.fc38.i686 52/153 Verifying : libsigsegv-2.14-3.fc38.i686 53/153 Verifying : libssh-0.10.4-2.fc38.i686 54/153 Verifying : libssh-config-0.10.4-2.fc38.noarch 55/153 Verifying : libtasn1-4.19.0-1.fc38.i686 56/153 Verifying : libtirpc-1.3.3-0.fc38.i686 57/153 Verifying : libunistring-1.0-2.fc38.i686 58/153 Verifying : libutempter-1.2.1-7.fc38.i686 59/153 Verifying : libverto-0.3.2-4.fc38.i686 60/153 Verifying : libxcrypt-4.4.33-5.fc38.i686 61/153 Verifying : libxml2-2.10.3-2.fc38.i686 62/153 Verifying : lua-libs-5.4.4-6.fc38.i686 63/153 Verifying : lz4-libs-1.9.3-5.fc38.i686 64/153 Verifying : mpfr-4.1.1-2.fc38.i686 65/153 Verifying : ncurses-base-6.3-5.20221126.fc38.noarch 66/153 Verifying : ncurses-libs-6.3-5.20221126.fc38.i686 67/153 Verifying : nettle-3.8-2.fc38.i686 68/153 Verifying : openldap-2.6.3-1.fc38.i686 69/153 Verifying : openssl-libs-1:3.0.5-6.fc38.i686 70/153 Verifying : p11-kit-0.24.1-5.fc38.i686 71/153 Verifying : p11-kit-trust-0.24.1-5.fc38.i686 72/153 Verifying : pam-1.5.2-15.fc38.i686 73/153 Verifying : pam-libs-1.5.2-15.fc38.i686 74/153 Verifying : patch-2.7.6-17.fc38.i686 75/153 Verifying : pcre2-10.40-1.fc38.1.i686 76/153 Verifying : pcre2-syntax-10.40-1.fc38.1.noarch 77/153 Verifying : pkgconf-1.8.0-3.fc38.i686 78/153 Verifying : pkgconf-m4-1.8.0-3.fc38.noarch 79/153 Verifying : pkgconf-pkg-config-1.8.0-3.fc38.i686 80/153 Verifying : popt-1.19-1.fc38.i686 81/153 Verifying : libgcc-13.0.0-0.4.fc38.i686 82/153 Verifying : libgomp-13.0.0-0.4.fc38.i686 83/153 Verifying : libstdc++-13.0.0-0.4.fc38.i686 84/153 Verifying : ansible-srpm-macros-1-8.1.fc38.noarch 85/153 Verifying : audit-libs-3.0.9-2.fc38.i686 86/153 Verifying : basesystem-11-14.fc37.noarch 87/153 Verifying : ca-certificates-2022.2.54-5.fc37.noarch 88/153 Verifying : crypto-policies-20221215-1.gita4c31a3.fc38.noarc 89/153 Verifying : debugedit-5.0-5.fc37.i686 90/153 Verifying : efi-srpm-macros-5-6.fc37.noarch 91/153 Verifying : fedora-gpg-keys-38-0.3.noarch 92/153 Verifying : fedora-release-38-0.6.noarch 93/153 Verifying : fedora-release-common-38-0.6.noarch 94/153 Verifying : fedora-release-identity-basic-38-0.6.noarch 95/153 Verifying : fedora-repos-38-0.3.noarch 96/153 Verifying : fedora-repos-rawhide-38-0.3.noarch 97/153 Verifying : filesystem-3.18-2.fc37.i686 98/153 Verifying : fonts-srpm-macros-1:2.0.5-10.fc38.noarch 99/153 Verifying : fpc-srpm-macros-1.3-6.fc37.noarch 100/153 Verifying : gdb-minimal-12.1-10.fc38.i686 101/153 Verifying : ghc-srpm-macros-1.5.0-7.fc37.noarch 102/153 Verifying : glibc-2.36.9000-19.fc38.i686 103/153 Verifying : glibc-common-2.36.9000-19.fc38.i686 104/153 Verifying : glibc-gconv-extra-2.36.9000-19.fc38.i686 105/153 Verifying : glibc-minimal-langpack-2.36.9000-19.fc38.i686 106/153 Verifying : gnat-srpm-macros-4-16.fc37.noarch 107/153 Verifying : go-srpm-macros-3.2.0-1.fc38.noarch 108/153 Verifying : info-7.0.1-1.fc38.i686 109/153 Verifying : kernel-srpm-macros-1.0-15.fc37.noarch 110/153 Verifying : libblkid-2.38.1-3.fc38.i686 111/153 Verifying : libcom_err-1.46.5-3.fc37.i686 112/153 Verifying : libfdisk-2.38.1-3.fc38.i686 113/153 Verifying : libmount-2.38.1-3.fc38.i686 114/153 Verifying : libpwquality-1.4.5-1.fc38.i686 115/153 Verifying : libsmartcols-2.38.1-3.fc38.i686 116/153 Verifying : libuuid-2.38.1-3.fc38.i686 117/153 Verifying : libzstd-1.5.2-3.fc37.i686 118/153 Verifying : lua-srpm-macros-1-7.fc37.noarch 119/153 Verifying : nim-srpm-macros-3-7.fc37.noarch 120/153 Verifying : ocaml-srpm-macros-7-2.fc37.noarch 121/153 Verifying : openblas-srpm-macros-2-12.fc37.noarch 122/153 Verifying : package-notes-srpm-macros-0.5-6.fc38.noarch 123/153 Verifying : perl-srpm-macros-1-47.fc38.noarch 124/153 Verifying : publicsuffix-list-dafsa-20221208-1.fc38.noarch 125/153 Verifying : python-srpm-macros-3.11-6.fc38.noarch 126/153 Verifying : qt5-srpm-macros-5.15.7-1.fc38.noarch 127/153 Verifying : readline-8.2-2.fc38.i686 128/153 Verifying : redhat-rpm-config-235-1.fc38.noarch 129/153 Verifying : rpm-4.18.0-8.fc38.i686 130/153 Verifying : rpm-build-4.18.0-8.fc38.i686 131/153 Verifying : rpm-build-libs-4.18.0-8.fc38.i686 132/153 Verifying : rpm-libs-4.18.0-8.fc38.i686 133/153 Verifying : rpm-sequoia-1.2.0-1.fc38.i686 134/153 Verifying : rpmautospec-rpm-macros-0.3.1-1.fc38.noarch 135/153 Verifying : rust-srpm-macros-23-1.fc38.noarch 136/153 Verifying : sed-4.8-11.fc37.i686 137/153 Verifying : setup-2.14.3-1.fc38.noarch 138/153 Verifying : shadow-utils-2:4.13-3.fc38.i686 139/153 Verifying : sqlite-libs-3.40.0-1.fc38.i686 140/153 Verifying : systemd-libs-252.4-598.fc38.i686 141/153 Verifying : tar-2:1.34-5.fc38.i686 142/153 Verifying : tzdata-2022g-1.fc38.noarch 143/153 Verifying : unzip-6.0-58.fc38.i686 144/153 Verifying : util-linux-2.38.1-3.fc38.i686 145/153 Verifying : util-linux-core-2.38.1-3.fc38.i686 146/153 Verifying : which-2.21-36.fc38.i686 147/153 Verifying : xxhash-libs-0.8.1-3.fc37.i686 148/153 Verifying : xz-5.2.9-1.fc38.i686 149/153 Verifying : xz-libs-5.2.9-1.fc38.i686 150/153 Verifying : zip-3.0-35.fc38.i686 151/153 Verifying : zlib-1.2.13-1.fc38.i686 152/153 Verifying : zstd-1.5.2-3.fc37.i686 153/153 Installed: alternatives-1.21-1.fc38.i686 ansible-srpm-macros-1-8.1.fc38.noarch audit-libs-3.0.9-2.fc38.i686 authselect-1.4.2-1.fc38.i686 authselect-libs-1.4.2-1.fc38.i686 basesystem-11-14.fc37.noarch bash-5.2.9-3.fc38.i686 binutils-2.39-6.fc38.i686 binutils-gold-2.39-6.fc38.i686 bzip2-1.0.8-12.fc38.i686 bzip2-libs-1.0.8-12.fc38.i686 ca-certificates-2022.2.54-5.fc37.noarch coreutils-9.1-8.fc38.i686 coreutils-common-9.1-8.fc38.i686 cpio-2.13-13.fc38.i686 cracklib-2.9.7-30.fc38.i686 crypto-policies-20221215-1.gita4c31a3.fc38.noarch curl-7.87.0-1.fc38.i686 cyrus-sasl-lib-2.1.28-8.fc38.i686 debugedit-5.0-5.fc37.i686 diffutils-3.8-3.fc38.i686 dwz-0.15-1.fc38.i686 ed-1.18-2.fc38.i686 efi-srpm-macros-5-6.fc37.noarch elfutils-0.188-3.fc38.i686 elfutils-debuginfod-client-0.188-3.fc38.i686 elfutils-default-yama-scope-0.188-3.fc38.noarch elfutils-libelf-0.188-3.fc38.i686 elfutils-libs-0.188-3.fc38.i686 fedora-gpg-keys-38-0.3.noarch fedora-release-38-0.6.noarch fedora-release-common-38-0.6.noarch fedora-release-identity-basic-38-0.6.noarch fedora-repos-38-0.3.noarch fedora-repos-rawhide-38-0.3.noarch file-5.42-4.fc38.i686 file-libs-5.42-4.fc38.i686 filesystem-3.18-2.fc37.i686 findutils-1:4.9.0-2.fc38.i686 fonts-srpm-macros-1:2.0.5-10.fc38.noarch fpc-srpm-macros-1.3-6.fc37.noarch gawk-5.1.1-4.fc38.i686 gdb-minimal-12.1-10.fc38.i686 gdbm-libs-1:1.23-2.fc38.i686 ghc-srpm-macros-1.5.0-7.fc37.noarch glibc-2.36.9000-19.fc38.i686 glibc-common-2.36.9000-19.fc38.i686 glibc-gconv-extra-2.36.9000-19.fc38.i686 glibc-minimal-langpack-2.36.9000-19.fc38.i686 gmp-1:6.2.1-3.fc38.i686 gnat-srpm-macros-4-16.fc37.noarch go-srpm-macros-3.2.0-1.fc38.noarch grep-3.8-1.fc38.i686 gzip-1.12-2.fc38.i686 info-7.0.1-1.fc38.i686 jansson-2.13.1-5.fc38.i686 kernel-srpm-macros-1.0-15.fc37.noarch keyutils-libs-1.6.1-5.fc38.i686 krb5-libs-1.20.1-3.fc38.i686 libacl-2.3.1-4.fc38.i686 libarchive-3.6.1-3.fc38.i686 libattr-2.5.1-5.fc38.i686 libblkid-2.38.1-3.fc38.i686 libbrotli-1.0.9-9.fc38.i686 libcap-2.48-5.fc38.i686 libcap-ng-0.8.3-4.fc38.i686 libcom_err-1.46.5-3.fc37.i686 libcurl-7.87.0-1.fc38.i686 libdb-5.3.28-54.fc38.i686 libeconf-0.4.0-4.fc38.i686 libevent-2.1.12-7.fc38.i686 libfdisk-2.38.1-3.fc38.i686 libffi-3.4.4-1.fc38.i686 libgcc-13.0.0-0.4.fc38.i686 libgomp-13.0.0-0.4.fc38.i686 libidn2-2.3.4-1.fc38.i686 libmount-2.38.1-3.fc38.i686 libnghttp2-1.51.0-1.fc38.i686 libnsl2-2.0.0-4.fc38.i686 libpkgconf-1.8.0-3.fc38.i686 libpsl-0.21.1-6.fc38.i686 libpwquality-1.4.5-1.fc38.i686 libselinux-3.4-6.fc38.i686 libsemanage-3.4-6.fc38.i686 libsepol-3.4-4.fc38.i686 libsigsegv-2.14-3.fc38.i686 libsmartcols-2.38.1-3.fc38.i686 libssh-0.10.4-2.fc38.i686 libssh-config-0.10.4-2.fc38.noarch libstdc++-13.0.0-0.4.fc38.i686 libtasn1-4.19.0-1.fc38.i686 libtirpc-1.3.3-0.fc38.i686 libunistring-1.0-2.fc38.i686 libutempter-1.2.1-7.fc38.i686 libuuid-2.38.1-3.fc38.i686 libverto-0.3.2-4.fc38.i686 libxcrypt-4.4.33-5.fc38.i686 libxml2-2.10.3-2.fc38.i686 libzstd-1.5.2-3.fc37.i686 lua-libs-5.4.4-6.fc38.i686 lua-srpm-macros-1-7.fc37.noarch lz4-libs-1.9.3-5.fc38.i686 mpfr-4.1.1-2.fc38.i686 ncurses-base-6.3-5.20221126.fc38.noarch ncurses-libs-6.3-5.20221126.fc38.i686 nettle-3.8-2.fc38.i686 nim-srpm-macros-3-7.fc37.noarch ocaml-srpm-macros-7-2.fc37.noarch openblas-srpm-macros-2-12.fc37.noarch openldap-2.6.3-1.fc38.i686 openssl-libs-1:3.0.5-6.fc38.i686 p11-kit-0.24.1-5.fc38.i686 p11-kit-trust-0.24.1-5.fc38.i686 package-notes-srpm-macros-0.5-6.fc38.noarch pam-1.5.2-15.fc38.i686 pam-libs-1.5.2-15.fc38.i686 patch-2.7.6-17.fc38.i686 pcre2-10.40-1.fc38.1.i686 pcre2-syntax-10.40-1.fc38.1.noarch perl-srpm-macros-1-47.fc38.noarch pkgconf-1.8.0-3.fc38.i686 pkgconf-m4-1.8.0-3.fc38.noarch pkgconf-pkg-config-1.8.0-3.fc38.i686 popt-1.19-1.fc38.i686 publicsuffix-list-dafsa-20221208-1.fc38.noarch python-srpm-macros-3.11-6.fc38.noarch qt5-srpm-macros-5.15.7-1.fc38.noarch readline-8.2-2.fc38.i686 redhat-rpm-config-235-1.fc38.noarch rpm-4.18.0-8.fc38.i686 rpm-build-4.18.0-8.fc38.i686 rpm-build-libs-4.18.0-8.fc38.i686 rpm-libs-4.18.0-8.fc38.i686 rpm-sequoia-1.2.0-1.fc38.i686 rpmautospec-rpm-macros-0.3.1-1.fc38.noarch rust-srpm-macros-23-1.fc38.noarch sed-4.8-11.fc37.i686 setup-2.14.3-1.fc38.noarch shadow-utils-2:4.13-3.fc38.i686 sqlite-libs-3.40.0-1.fc38.i686 systemd-libs-252.4-598.fc38.i686 tar-2:1.34-5.fc38.i686 tzdata-2022g-1.fc38.noarch unzip-6.0-58.fc38.i686 util-linux-2.38.1-3.fc38.i686 util-linux-core-2.38.1-3.fc38.i686 which-2.21-36.fc38.i686 xxhash-libs-0.8.1-3.fc37.i686 xz-5.2.9-1.fc38.i686 xz-libs-5.2.9-1.fc38.i686 zip-3.0-35.fc38.i686 zlib-1.2.13-1.fc38.i686 zstd-1.5.2-3.fc37.i686 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: glibc-minimal-langpack-2.36.9000-19.fc38.i686 curl-7.87.0-1.fc38.i686 libpsl-0.21.1-6.fc38.i686 publicsuffix-list-dafsa-20221208-1.fc38.noarch libbrotli-1.0.9-9.fc38.i686 p11-kit-0.24.1-5.fc38.i686 libverto-0.3.2-4.fc38.i686 openssl-libs-3.0.5-6.fc38.i686 bzip2-1.0.8-12.fc38.i686 libssh-config-0.10.4-2.fc38.noarch mpfr-4.1.1-2.fc38.i686 libxml2-2.10.3-2.fc38.i686 which-2.21-36.fc38.i686 gdb-minimal-12.1-10.fc38.i686 libuuid-2.38.1-3.fc38.i686 ocaml-srpm-macros-7-2.fc37.noarch libffi-3.4.4-1.fc38.i686 rpm-build-libs-4.18.0-8.fc38.i686 sqlite-libs-3.40.0-1.fc38.i686 gnat-srpm-macros-4-16.fc37.noarch libselinux-3.4-6.fc38.i686 setup-2.14.3-1.fc38.noarch openldap-2.6.3-1.fc38.i686 elfutils-libs-0.188-3.fc38.i686 xz-5.2.9-1.fc38.i686 dwz-0.15-1.fc38.i686 util-linux-core-2.38.1-3.fc38.i686 fonts-srpm-macros-2.0.5-10.fc38.noarch lua-libs-5.4.4-6.fc38.i686 alternatives-1.21-1.fc38.i686 audit-libs-3.0.9-2.fc38.i686 libsepol-3.4-4.fc38.i686 libsmartcols-2.38.1-3.fc38.i686 rpm-libs-4.18.0-8.fc38.i686 gzip-1.12-2.fc38.i686 rpm-build-4.18.0-8.fc38.i686 libunistring-1.0-2.fc38.i686 lua-srpm-macros-1-7.fc37.noarch glibc-gconv-extra-2.36.9000-19.fc38.i686 libstdc++-13.0.0-0.4.fc38.i686 gawk-5.1.1-4.fc38.i686 python-srpm-macros-3.11-6.fc38.noarch fedora-release-common-38-0.6.noarch diffutils-3.8-3.fc38.i686 xxhash-libs-0.8.1-3.fc37.i686 coreutils-common-9.1-8.fc38.i686 libpkgconf-1.8.0-3.fc38.i686 ed-1.18-2.fc38.i686 ansible-srpm-macros-1-8.1.fc38.noarch basesystem-11-14.fc37.noarch libarchive-3.6.1-3.fc38.i686 nettle-3.8-2.fc38.i686 readline-8.2-2.fc38.i686 redhat-rpm-config-235-1.fc38.noarch glibc-2.36.9000-19.fc38.i686 debugedit-5.0-5.fc37.i686 libcurl-7.87.0-1.fc38.i686 libzstd-1.5.2-3.fc37.i686 libattr-2.5.1-5.fc38.i686 pcre2-10.40-1.fc38.1.i686 package-notes-srpm-macros-0.5-6.fc38.noarch tar-1.34-5.fc38.i686 fedora-gpg-keys-38-0.3.noarch fedora-repos-38-0.3.noarch pkgconf-m4-1.8.0-3.fc38.noarch libtirpc-1.3.3-0.fc38.i686 openblas-srpm-macros-2-12.fc37.noarch elfutils-debuginfod-client-0.188-3.fc38.i686 libblkid-2.38.1-3.fc38.i686 cpio-2.13-13.fc38.i686 ncurses-libs-6.3-5.20221126.fc38.i686 libnsl2-2.0.0-4.fc38.i686 libsemanage-3.4-6.fc38.i686 gdbm-libs-1.23-2.fc38.i686 zip-3.0-35.fc38.i686 libutempter-1.2.1-7.fc38.i686 popt-1.19-1.fc38.i686 pkgconf-1.8.0-3.fc38.i686 pkgconf-pkg-config-1.8.0-3.fc38.i686 libmount-2.38.1-3.fc38.i686 fedora-release-identity-basic-38-0.6.noarch authselect-1.4.2-1.fc38.i686 pcre2-syntax-10.40-1.fc38.1.noarch zlib-1.2.13-1.fc38.i686 tzdata-2022g-1.fc38.noarch nim-srpm-macros-3-7.fc37.noarch bash-5.2.9-3.fc38.i686 efi-srpm-macros-5-6.fc37.noarch lz4-libs-1.9.3-5.fc38.i686 kernel-srpm-macros-1.0-15.fc37.noarch ghc-srpm-macros-1.5.0-7.fc37.noarch keyutils-libs-1.6.1-5.fc38.i686 rust-srpm-macros-23-1.fc38.noarch libfdisk-2.38.1-3.fc38.i686 libidn2-2.3.4-1.fc38.i686 libeconf-0.4.0-4.fc38.i686 libcom_err-1.46.5-3.fc37.i686 libdb-5.3.28-54.fc38.i686 rpm-4.18.0-8.fc38.i686 rpm-sequoia-1.2.0-1.fc38.i686 p11-kit-trust-0.24.1-5.fc38.i686 fedora-repos-rawhide-38-0.3.noarch gmp-6.2.1-3.fc38.i686 patch-2.7.6-17.fc38.i686 libacl-2.3.1-4.fc38.i686 libevent-2.1.12-7.fc38.i686 elfutils-libelf-0.188-3.fc38.i686 libpwquality-1.4.5-1.fc38.i686 rpmautospec-rpm-macros-0.3.1-1.fc38.noarch sed-4.8-11.fc37.i686 ncurses-base-6.3-5.20221126.fc38.noarch crypto-policies-20221215-1.gita4c31a3.fc38.noarch fpc-srpm-macros-1.3-6.fc37.noarch krb5-libs-1.20.1-3.fc38.i686 qt5-srpm-macros-5.15.7-1.fc38.noarch coreutils-9.1-8.fc38.i686 cyrus-sasl-lib-2.1.28-8.fc38.i686 libnghttp2-1.51.0-1.fc38.i686 systemd-libs-252.4-598.fc38.i686 glibc-common-2.36.9000-19.fc38.i686 file-libs-5.42-4.fc38.i686 libxcrypt-4.4.33-5.fc38.i686 elfutils-default-yama-scope-0.188-3.fc38.noarch binutils-2.39-6.fc38.i686 libsigsegv-2.14-3.fc38.i686 xz-libs-5.2.9-1.fc38.i686 authselect-libs-1.4.2-1.fc38.i686 libgcc-13.0.0-0.4.fc38.i686 pam-libs-1.5.2-15.fc38.i686 cracklib-2.9.7-30.fc38.i686 elfutils-0.188-3.fc38.i686 unzip-6.0-58.fc38.i686 libtasn1-4.19.0-1.fc38.i686 info-7.0.1-1.fc38.i686 file-5.42-4.fc38.i686 ca-certificates-2022.2.54-5.fc37.noarch libcap-ng-0.8.3-4.fc38.i686 libcap-2.48-5.fc38.i686 libgomp-13.0.0-0.4.fc38.i686 perl-srpm-macros-1-47.fc38.noarch grep-3.8-1.fc38.i686 libssh-0.10.4-2.fc38.i686 util-linux-2.38.1-3.fc38.i686 filesystem-3.18-2.fc37.i686 pam-1.5.2-15.fc38.i686 zstd-1.5.2-3.fc37.i686 findutils-4.9.0-2.fc38.i686 binutils-gold-2.39-6.fc38.i686 go-srpm-macros-3.2.0-1.fc38.noarch jansson-2.13.1-5.fc38.i686 shadow-utils-4.13-3.fc38.i686 bzip2-libs-1.0.8-12.fc38.i686 fedora-release-38-0.6.noarch Start: buildsrpm Start: rpmbuild -bs Building target platforms: i686 Building for target i686 setting SOURCE_DATE_EPOCH=1661817600 Wrote: /builddir/build/SRPMS/python-pysam-0.19.1-3.fc38.src.rpm Finish: rpmbuild -bs cp: ‘var/lib/mock/fedora-rawhide-i686-1672139028.021383/root/var/log’: No such file or directory INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-i686-1672139028.021383/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-i686-1672139028.021383/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-i686-1672139028.021383/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-8kbsl6mn/python-pysam/python-pysam.spec) Config(child) 1 minutes 7 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 (timeout=115200): unbuffer mock --rebuild /var/lib/copr-rpmbuild/results/python-pysam-0.19.1-3.fc38.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1672139028.021383 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.5 starting (python version = 3.11.0, NVR = mock-3.5-1.fc37)... 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/results/python-pysam-0.19.1-3.fc38.src.rpm) Config(fedora-rawhide-i686) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-i686-bootstrap-1672139028.021383/root. INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-i686-bootstrap-1672139028.021383/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: enabled HW Info plugin Mock Version: 3.5 INFO: Mock Version: 3.5 Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-i686-1672139028.021383/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 Mock Version: 3.5 INFO: Mock Version: 3.5 Start: dnf update No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 11 kB/s | 3.0 kB 00:00 Additional repo https_jakub_fedorapeople_org_fe 9.8 kB/s | 3.0 kB 00:00 local 13 kB/s | 3.8 kB 00:00 local 20 MB/s | 60 MB 00:02 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for python-pysam-0.19.1-3.fc38.src.rpm Start: build setup for python-pysam-0.19.1-3.fc38.src.rpm Building target platforms: i686 Building for target i686 setting SOURCE_DATE_EPOCH=1661817600 Wrote: /builddir/build/SRPMS/python-pysam-0.19.1-3.fc38.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 12 kB/s | 3.0 kB 00:00 Copr repository 33 MB/s | 31 MB 00:00 Additional repo https_jakub_fedorapeople_org_fe 9.6 kB/s | 3.0 kB 00:00 local 14 kB/s | 3.8 kB 00:00 Dependencies resolved. ======================================================================================================================== Package Arch Version Repository Size ======================================================================================================================== Installing: bzip2-devel i686 1.0.8-12.fc38 copr_base 214 k gcc i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 34 M python3-Cython i686 0.29.32-2.fc38 copr_base 2.5 M python3-devel i686 3.11.1-1.fc38 local 234 k python3-setuptools noarch 65.5.1-1.fc38 local 1.5 M python3-sphinx noarch 1:5.3.0-1.fc38 local 2.6 M xz-devel i686 5.2.9-1.fc38 local 53 k zlib-devel i686 1.2.13-1.fc38 local 45 k Installing dependencies: annobin-docs noarch 10.99-1.0.1.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 93 k annobin-plugin-gcc i686 10.99-1.0.1.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 889 k cpp i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 11 M expat i686 2.5.0-1.fc38 copr_base 115 k gc i686 8.2.2-1.fc38 copr_base 113 k gcc-plugin-annobin i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 30 k glibc-devel i686 2.36.9000-19.fc38 local 43 k glibc-headers-x86 noarch 2.36.9000-19.fc38 local 450 k guile22 i686 2.2.7-6.fc38 copr_base 6.5 M kernel-headers i686 6.1.0-1.fc38 local 1.4 M libasan i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 491 k libatomic i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 17 k libb2 i686 0.98.1-7.fc38 copr_base 29 k libmpc i686 1.2.1-5.fc38 copr_base 66 k libtool-ltdl i686 2.4.7-3.0.1.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 39 k libubsan i686 13.0.0-0.4.fc38 https_jakub_fedorapeople_org_fedora_gcc13_arch 219 k libxcrypt-devel i686 4.4.33-5.fc38 copr_base 31 k make i686 1:4.3-11.fc38 copr_base 542 k mpdecimal i686 2.5.1-4.fc38 copr_base 107 k pyproject-rpm-macros noarch 1.5.0-1.fc38 local 40 k python-pip-wheel noarch 22.3.1-1.fc38 local 1.4 M python-rpm-macros noarch 3.11-6.fc38 local 19 k python-setuptools-wheel noarch 65.5.1-1.fc38 local 715 k python3 i686 3.11.1-1.fc38 local 27 k python3-babel noarch 2.10.3-3.fc37 local 6.4 M python3-charset-normalizer noarch 2.1.0-2.fc37 local 93 k python3-docutils noarch 0.19-1.fc38 local 1.0 M python3-idna noarch 3.4-1.fc38 local 104 k python3-imagesize noarch 1.4.1-1.fc38 local 22 k python3-jinja2 noarch 3.0.3-6.fc38 local 606 k python3-libs i686 3.11.1-1.fc38 local 9.3 M python3-markupsafe i686 2.1.1-3.fc38 copr_base 31 k python3-packaging noarch 21.3-7.fc38 local 89 k python3-pygments noarch 2.13.0-1.fc38 local 2.3 M python3-pyparsing noarch 3.0.9-2.fc37 local 255 k python3-pysocks noarch 1.7.1-15.fc37 local 40 k python3-pytz noarch 2022.7-1.fc38 local 60 k python3-requests noarch 2.28.1-3.fc38 local 144 k python3-rpm-generators noarch 13-2.fc37 local 30 k python3-rpm-macros noarch 3.11-6.fc38 local 15 k python3-six noarch 1.16.0-8.fc37 local 42 k python3-snowballstemmer noarch 2.2.0-4.fc38 local 242 k python3-sphinx-theme-alabaster noarch 0.7.12-16.fc37 local 24 k python3-sphinxcontrib-applehelp noarch 1.0.2-10.fc37 local 37 k python3-sphinxcontrib-devhelp noarch 1.0.2-10.fc37 local 31 k python3-sphinxcontrib-htmlhelp noarch 2.0.0-7.fc37 local 42 k python3-sphinxcontrib-jsmath noarch 1.0.1-18.fc37 local 17 k python3-sphinxcontrib-qthelp noarch 1.0.3-11.fc37 local 36 k python3-sphinxcontrib-serializinghtml noarch 1.1.5-6.fc37 local 35 k python3-urllib3 noarch 1.26.12-1.fc38 local 233 k Transaction Summary ======================================================================================================================== Install 58 Packages Total size: 86 M Total download size: 2.8 M Installed size: 310 M Downloading Packages: [SKIPPED] expat-2.5.0-1.fc38.i686.rpm: Already downloaded [SKIPPED] gc-8.2.2-1.fc38.i686.rpm: Already downloaded [SKIPPED] guile22-2.2.7-6.fc38.i686.rpm: Already downloaded [SKIPPED] libb2-0.98.1-7.fc38.i686.rpm: Already downloaded [SKIPPED] libmpc-1.2.1-5.fc38.i686.rpm: Already downloaded [SKIPPED] libxcrypt-devel-4.4.33-5.fc38.i686.rpm: Already downloaded [SKIPPED] make-4.3-11.fc38.i686.rpm: Already downloaded [SKIPPED] mpdecimal-2.5.1-4.fc38.i686.rpm: Already downloaded [SKIPPED] python3-markupsafe-2.1.1-3.fc38.i686.rpm: Already downloaded [SKIPPED] annobin-docs-10.99-1.0.1.fc38.noarch.rpm: Already downloaded [SKIPPED] annobin-plugin-gcc-10.99-1.0.1.fc38.i686.rpm: Already downloaded [SKIPPED] cpp-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] gcc-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] gcc-plugin-annobin-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] libasan-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] libatomic-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] libtool-ltdl-2.4.7-3.0.1.fc38.i686.rpm: Already downloaded [SKIPPED] libubsan-13.0.0-0.4.fc38.i686.rpm: Already downloaded [SKIPPED] glibc-devel-2.36.9000-19.fc38.i686.rpm: Already downloaded [SKIPPED] glibc-headers-x86-2.36.9000-19.fc38.noarch.rpm: Already downloaded [SKIPPED] kernel-headers-6.1.0-1.fc38.i686.rpm: Already downloaded [SKIPPED] pyproject-rpm-macros-1.5.0-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python-pip-wheel-22.3.1-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python-rpm-macros-3.11-6.fc38.noarch.rpm: Already downloaded [SKIPPED] python-setuptools-wheel-65.5.1-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-3.11.1-1.fc38.i686.rpm: Already downloaded [SKIPPED] python3-babel-2.10.3-3.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-charset-normalizer-2.1.0-2.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-devel-3.11.1-1.fc38.i686.rpm: Already downloaded [SKIPPED] python3-docutils-0.19-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-idna-3.4-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-imagesize-1.4.1-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-jinja2-3.0.3-6.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-libs-3.11.1-1.fc38.i686.rpm: Already downloaded [SKIPPED] python3-packaging-21.3-7.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-pygments-2.13.0-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-pyparsing-3.0.9-2.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-pysocks-1.7.1-15.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-pytz-2022.7-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-requests-2.28.1-3.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-rpm-generators-13-2.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-rpm-macros-3.11-6.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-setuptools-65.5.1-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-six-1.16.0-8.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-snowballstemmer-2.2.0-4.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-sphinx-5.3.0-1.fc38.noarch.rpm: Already downloaded [SKIPPED] python3-sphinx-theme-alabaster-0.7.12-16.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-sphinxcontrib-applehelp-1.0.2-10.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-sphinxcontrib-devhelp-1.0.2-10.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-sphinxcontrib-htmlhelp-2.0.0-7.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-sphinxcontrib-jsmath-1.0.1-18.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-sphinxcontrib-qthelp-1.0.3-11.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-sphinxcontrib-serializinghtml-1.1.5-6.fc37.noarch.rpm: Already downloaded [SKIPPED] python3-urllib3-1.26.12-1.fc38.noarch.rpm: Already downloaded [SKIPPED] zlib-devel-1.2.13-1.fc38.i686.rpm: Already downloaded (56/58): bzip2-devel-1.0.8-12.fc38.i686.rpm 763 kB/s | 214 kB 00:00 (57/58): xz-devel-5.2.9-1.fc38.i686.rpm 172 kB/s | 53 kB 00:00 (58/58): python3-Cython-0.29.32-2.fc38.i686.rpm 8.1 MB/s | 2.5 MB 00:00 -------------------------------------------------------------------------------- Total 6.8 MB/s | 2.8 MB 00:00 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Preparing : 1/1 Installing : python-rpm-macros-3.11-6.fc38.noarch 1/58 Installing : python3-rpm-macros-3.11-6.fc38.noarch 2/58 Installing : pyproject-rpm-macros-1.5.0-1.fc38.noarch 3/58 Installing : python-setuptools-wheel-65.5.1-1.fc38.noarch 4/58 Installing : python-pip-wheel-22.3.1-1.fc38.noarch 5/58 Installing : kernel-headers-6.1.0-1.fc38.i686 6/58 Installing : glibc-headers-x86-2.36.9000-19.fc38.noarch 7/58 Installing : glibc-devel-2.36.9000-19.fc38.i686 8/58 Installing : libxcrypt-devel-4.4.33-5.fc38.i686 9/58 Installing : annobin-docs-10.99-1.0.1.fc38.noarch 10/58 Installing : zlib-devel-1.2.13-1.fc38.i686 11/58 Installing : xz-devel-5.2.9-1.fc38.i686 12/58 Installing : bzip2-devel-1.0.8-12.fc38.i686 13/58 Installing : libmpc-1.2.1-5.fc38.i686 14/58 Installing : cpp-13.0.0-0.4.fc38.i686 15/58 Installing : libubsan-13.0.0-0.4.fc38.i686 16/58 Installing : libtool-ltdl-2.4.7-3.0.1.fc38.i686 17/58 Installing : libatomic-13.0.0-0.4.fc38.i686 18/58 Installing : libasan-13.0.0-0.4.fc38.i686 19/58 Installing : mpdecimal-2.5.1-4.fc38.i686 20/58 Installing : libb2-0.98.1-7.fc38.i686 21/58 Installing : gc-8.2.2-1.fc38.i686 22/58 Installing : guile22-2.2.7-6.fc38.i686 23/58 Installing : make-1:4.3-11.fc38.i686 24/58 Installing : gcc-13.0.0-0.4.fc38.i686 25/58 Running scriptlet: gcc-13.0.0-0.4.fc38.i686 25/58 Installing : expat-2.5.0-1.fc38.i686 26/58 Installing : python3-3.11.1-1.fc38.i686 27/58 Installing : python3-libs-3.11.1-1.fc38.i686 28/58 Installing : python3-idna-3.4-1.fc38.noarch 29/58 Installing : python3-charset-normalizer-2.1.0-2.fc37.noarch 30/58 Installing : python3-docutils-0.19-1.fc38.noarch 31/58 Installing : python3-imagesize-1.4.1-1.fc38.noarch 32/58 Installing : python3-pygments-2.13.0-1.fc38.noarch 33/58 Installing : python3-pyparsing-3.0.9-2.fc37.noarch 34/58 Installing : python3-packaging-21.3-7.fc38.noarch 35/58 Installing : python3-rpm-generators-13-2.fc37.noarch 36/58 Installing : python3-pysocks-1.7.1-15.fc37.noarch 37/58 Installing : python3-pytz-2022.7-1.fc38.noarch 38/58 Installing : python3-setuptools-65.5.1-1.fc38.noarch 39/58 Installing : python3-babel-2.10.3-3.fc37.noarch 40/58 Installing : python3-six-1.16.0-8.fc37.noarch 41/58 Installing : python3-urllib3-1.26.12-1.fc38.noarch 42/58 Installing : python3-requests-2.28.1-3.fc38.noarch 43/58 Installing : python3-snowballstemmer-2.2.0-4.fc38.noarch 44/58 Installing : python3-sphinx-theme-alabaster-0.7.12-16.fc37.noar 45/58 Installing : python3-sphinxcontrib-applehelp-1.0.2-10.fc37.noar 46/58 Installing : python3-sphinxcontrib-devhelp-1.0.2-10.fc37.noarch 47/58 Installing : python3-sphinxcontrib-htmlhelp-2.0.0-7.fc37.noarch 48/58 Installing : python3-sphinxcontrib-jsmath-1.0.1-18.fc37.noarch 49/58 Installing : python3-sphinxcontrib-qthelp-1.0.3-11.fc37.noarch 50/58 Installing : python3-sphinxcontrib-serializinghtml-1.1.5-6.fc37 51/58 Installing : python3-markupsafe-2.1.1-3.fc38.i686 52/58 Installing : python3-jinja2-3.0.3-6.fc38.noarch 53/58 Installing : python3-sphinx-1:5.3.0-1.fc38.noarch 54/58 Installing : python3-devel-3.11.1-1.fc38.i686 55/58 Installing : python3-Cython-0.29.32-2.fc38.i686 56/58 Installing : annobin-plugin-gcc-10.99-1.0.1.fc38.i686 57/58 Running scriptlet: annobin-plugin-gcc-10.99-1.0.1.fc38.i686 57/58 Installing : gcc-plugin-annobin-13.0.0-0.4.fc38.i686 58/58 Running scriptlet: gcc-plugin-annobin-13.0.0-0.4.fc38.i686 58/58 Verifying : bzip2-devel-1.0.8-12.fc38.i686 1/58 Verifying : expat-2.5.0-1.fc38.i686 2/58 Verifying : gc-8.2.2-1.fc38.i686 3/58 Verifying : guile22-2.2.7-6.fc38.i686 4/58 Verifying : libb2-0.98.1-7.fc38.i686 5/58 Verifying : libmpc-1.2.1-5.fc38.i686 6/58 Verifying : libxcrypt-devel-4.4.33-5.fc38.i686 7/58 Verifying : make-1:4.3-11.fc38.i686 8/58 Verifying : mpdecimal-2.5.1-4.fc38.i686 9/58 Verifying : python3-Cython-0.29.32-2.fc38.i686 10/58 Verifying : python3-markupsafe-2.1.1-3.fc38.i686 11/58 Verifying : annobin-docs-10.99-1.0.1.fc38.noarch 12/58 Verifying : annobin-plugin-gcc-10.99-1.0.1.fc38.i686 13/58 Verifying : cpp-13.0.0-0.4.fc38.i686 14/58 Verifying : gcc-13.0.0-0.4.fc38.i686 15/58 Verifying : gcc-plugin-annobin-13.0.0-0.4.fc38.i686 16/58 Verifying : libasan-13.0.0-0.4.fc38.i686 17/58 Verifying : libatomic-13.0.0-0.4.fc38.i686 18/58 Verifying : libtool-ltdl-2.4.7-3.0.1.fc38.i686 19/58 Verifying : libubsan-13.0.0-0.4.fc38.i686 20/58 Verifying : glibc-devel-2.36.9000-19.fc38.i686 21/58 Verifying : glibc-headers-x86-2.36.9000-19.fc38.noarch 22/58 Verifying : kernel-headers-6.1.0-1.fc38.i686 23/58 Verifying : pyproject-rpm-macros-1.5.0-1.fc38.noarch 24/58 Verifying : python-pip-wheel-22.3.1-1.fc38.noarch 25/58 Verifying : python-rpm-macros-3.11-6.fc38.noarch 26/58 Verifying : python-setuptools-wheel-65.5.1-1.fc38.noarch 27/58 Verifying : python3-3.11.1-1.fc38.i686 28/58 Verifying : python3-babel-2.10.3-3.fc37.noarch 29/58 Verifying : python3-charset-normalizer-2.1.0-2.fc37.noarch 30/58 Verifying : python3-devel-3.11.1-1.fc38.i686 31/58 Verifying : python3-docutils-0.19-1.fc38.noarch 32/58 Verifying : python3-idna-3.4-1.fc38.noarch 33/58 Verifying : python3-imagesize-1.4.1-1.fc38.noarch 34/58 Verifying : python3-jinja2-3.0.3-6.fc38.noarch 35/58 Verifying : python3-libs-3.11.1-1.fc38.i686 36/58 Verifying : python3-packaging-21.3-7.fc38.noarch 37/58 Verifying : python3-pygments-2.13.0-1.fc38.noarch 38/58 Verifying : python3-pyparsing-3.0.9-2.fc37.noarch 39/58 Verifying : python3-pysocks-1.7.1-15.fc37.noarch 40/58 Verifying : python3-pytz-2022.7-1.fc38.noarch 41/58 Verifying : python3-requests-2.28.1-3.fc38.noarch 42/58 Verifying : python3-rpm-generators-13-2.fc37.noarch 43/58 Verifying : python3-rpm-macros-3.11-6.fc38.noarch 44/58 Verifying : python3-setuptools-65.5.1-1.fc38.noarch 45/58 Verifying : python3-six-1.16.0-8.fc37.noarch 46/58 Verifying : python3-snowballstemmer-2.2.0-4.fc38.noarch 47/58 Verifying : python3-sphinx-1:5.3.0-1.fc38.noarch 48/58 Verifying : python3-sphinx-theme-alabaster-0.7.12-16.fc37.noar 49/58 Verifying : python3-sphinxcontrib-applehelp-1.0.2-10.fc37.noar 50/58 Verifying : python3-sphinxcontrib-devhelp-1.0.2-10.fc37.noarch 51/58 Verifying : python3-sphinxcontrib-htmlhelp-2.0.0-7.fc37.noarch 52/58 Verifying : python3-sphinxcontrib-jsmath-1.0.1-18.fc37.noarch 53/58 Verifying : python3-sphinxcontrib-qthelp-1.0.3-11.fc37.noarch 54/58 Verifying : python3-sphinxcontrib-serializinghtml-1.1.5-6.fc37 55/58 Verifying : python3-urllib3-1.26.12-1.fc38.noarch 56/58 Verifying : xz-devel-5.2.9-1.fc38.i686 57/58 Verifying : zlib-devel-1.2.13-1.fc38.i686 58/58 Installed: annobin-docs-10.99-1.0.1.fc38.noarch annobin-plugin-gcc-10.99-1.0.1.fc38.i686 bzip2-devel-1.0.8-12.fc38.i686 cpp-13.0.0-0.4.fc38.i686 expat-2.5.0-1.fc38.i686 gc-8.2.2-1.fc38.i686 gcc-13.0.0-0.4.fc38.i686 gcc-plugin-annobin-13.0.0-0.4.fc38.i686 glibc-devel-2.36.9000-19.fc38.i686 glibc-headers-x86-2.36.9000-19.fc38.noarch guile22-2.2.7-6.fc38.i686 kernel-headers-6.1.0-1.fc38.i686 libasan-13.0.0-0.4.fc38.i686 libatomic-13.0.0-0.4.fc38.i686 libb2-0.98.1-7.fc38.i686 libmpc-1.2.1-5.fc38.i686 libtool-ltdl-2.4.7-3.0.1.fc38.i686 libubsan-13.0.0-0.4.fc38.i686 libxcrypt-devel-4.4.33-5.fc38.i686 make-1:4.3-11.fc38.i686 mpdecimal-2.5.1-4.fc38.i686 pyproject-rpm-macros-1.5.0-1.fc38.noarch python-pip-wheel-22.3.1-1.fc38.noarch python-rpm-macros-3.11-6.fc38.noarch python-setuptools-wheel-65.5.1-1.fc38.noarch python3-3.11.1-1.fc38.i686 python3-Cython-0.29.32-2.fc38.i686 python3-babel-2.10.3-3.fc37.noarch python3-charset-normalizer-2.1.0-2.fc37.noarch python3-devel-3.11.1-1.fc38.i686 python3-docutils-0.19-1.fc38.noarch python3-idna-3.4-1.fc38.noarch python3-imagesize-1.4.1-1.fc38.noarch python3-jinja2-3.0.3-6.fc38.noarch python3-libs-3.11.1-1.fc38.i686 python3-markupsafe-2.1.1-3.fc38.i686 python3-packaging-21.3-7.fc38.noarch python3-pygments-2.13.0-1.fc38.noarch python3-pyparsing-3.0.9-2.fc37.noarch python3-pysocks-1.7.1-15.fc37.noarch python3-pytz-2022.7-1.fc38.noarch python3-requests-2.28.1-3.fc38.noarch python3-rpm-generators-13-2.fc37.noarch python3-rpm-macros-3.11-6.fc38.noarch python3-setuptools-65.5.1-1.fc38.noarch python3-six-1.16.0-8.fc37.noarch python3-snowballstemmer-2.2.0-4.fc38.noarch python3-sphinx-1:5.3.0-1.fc38.noarch python3-sphinx-theme-alabaster-0.7.12-16.fc37.noarch python3-sphinxcontrib-applehelp-1.0.2-10.fc37.noarch python3-sphinxcontrib-devhelp-1.0.2-10.fc37.noarch python3-sphinxcontrib-htmlhelp-2.0.0-7.fc37.noarch python3-sphinxcontrib-jsmath-1.0.1-18.fc37.noarch python3-sphinxcontrib-qthelp-1.0.3-11.fc37.noarch python3-sphinxcontrib-serializinghtml-1.1.5-6.fc37.noarch python3-urllib3-1.26.12-1.fc38.noarch xz-devel-5.2.9-1.fc38.i686 zlib-devel-1.2.13-1.fc38.i686 Complete! Finish: build setup for python-pysam-0.19.1-3.fc38.src.rpm Start: rpmbuild python-pysam-0.19.1-3.fc38.src.rpm Building target platforms: i686 Building for target i686 setting SOURCE_DATE_EPOCH=1661817600 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.GNnoaN + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf pysam-0.19.1 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/pysam-0.19.1.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd pysam-0.19.1 + /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.nj1fcW + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/gfortran/modules' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + 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/lib: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd pysam-0.19.1 + FORCE_CYTHON=1 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-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' # 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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection # 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 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... 64 checking shared library type for unknown-Linux... plain .so 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 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... 64 checking shared library type for unknown-Linux... plain .so 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 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_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.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-i686-cpython-311 creating build/lib.linux-i686-cpython-311/pysam copying pysam/config.py -> build/lib.linux-i686-cpython-311/pysam copying pysam/version.py -> build/lib.linux-i686-cpython-311/pysam copying pysam/utils.py -> build/lib.linux-i686-cpython-311/pysam copying pysam/samtools.py -> build/lib.linux-i686-cpython-311/pysam copying pysam/bcftools.py -> build/lib.linux-i686-cpython-311/pysam copying pysam/__init__.py -> build/lib.linux-i686-cpython-311/pysam copying pysam/Pileup.py -> build/lib.linux-i686-cpython-311/pysam creating build/lib.linux-i686-cpython-311/pysam/include copying pysam/include/__init__.py -> build/lib.linux-i686-cpython-311/pysam/include copying pysam/libcvcf.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcutils.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libctabixproxies.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libctabix.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcsamtools.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcsamfile.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libchtslib.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcfaidx.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcbcftools.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcbcf.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcalignmentfile.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcalignedsegment.pxd -> build/lib.linux-i686-cpython-311/pysam copying pysam/version.h -> build/lib.linux-i686-cpython-311/pysam copying pysam/pysam_util.h -> build/lib.linux-i686-cpython-311/pysam copying pysam/pysam_stream.h -> build/lib.linux-i686-cpython-311/pysam copying pysam/htslib_util.h -> build/lib.linux-i686-cpython-311/pysam copying pysam/csamtools_util.h -> build/lib.linux-i686-cpython-311/pysam copying pysam/cbcftools_util.h -> build/lib.linux-i686-cpython-311/pysam copying pysam/py.typed -> build/lib.linux-i686-cpython-311/pysam copying pysam/version.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcvcf.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcutils.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libctabixproxies.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libctabix.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcsamtools.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcsamfile.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libchtslib.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcfaidx.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcbgzf.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcbcftools.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcbcf.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcalignmentfile.pyi -> build/lib.linux-i686-cpython-311/pysam copying pysam/libcalignedsegment.pyi -> build/lib.linux-i686-cpython-311/pysam creating build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/config.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/tmp_file.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/stats_isize.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/splaysort.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/samtools.pysam.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/samtools.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/sample.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/sam_opts.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/consensus_pileup.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/bedidx.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/bam_plbuf.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/bam_lpileup.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/bam_ampliconclip.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools copying samtools/bam.h -> build/lib.linux-i686-cpython-311/pysam/include/samtools creating build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/config.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/vcmp.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/vcfbuf.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/variantkey.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/utlist.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/tsv2vcf.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/str_finder.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/smpl_ilist.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/regidx.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/rbuf.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/prob1.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/ploidy.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/mw.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/kmin.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/kheap.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/khash_str2str.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/hex.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/hclust.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/gvcf.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/filter.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/extsort.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/dist.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/dbuf.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/convert.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/cols.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/call.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/bin.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/bcftools.pysam.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/bcftools.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/bam_sample.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/bam2bcf.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/abuf.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools copying bcftools/HMM.h -> build/lib.linux-i686-cpython-311/pysam/include/bcftools creating build/lib.linux-i686-cpython-311/pysam/include/htslib copying htslib/config.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib copying htslib/thread_pool_internal.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib copying htslib/textutils_internal.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib copying htslib/sam_internal.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib copying htslib/hts_internal.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib copying htslib/hfile_internal.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib copying htslib/header.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib copying htslib/bcf_sr_sort.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib creating build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/vcfutils.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/vcf_sweep.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/vcf.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/thread_pool.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/tbx.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/synced_bcf_reader.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/sam.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/regidx.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/kstring.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/ksort.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/kseq.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/kroundup.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/knetfile.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/klist.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/khash_str2int.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/khash.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/kfunc.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/kbitset.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/hts_os.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/hts_log.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/hts_expr.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/hts_endian.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/hts_defs.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/hts.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/hfile.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/faidx.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/cram.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib copying htslib/htslib/bgzf.h -> build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib running build_ext cythoning pysam/libchtslib.pyx to pysam/libchtslib.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libchtslib.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcsamtools.pyx to pysam/libcsamtools.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcsamtools.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcbcftools.pyx to pysam/libcbcftools.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcbcftools.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcutils.pyx to pysam/libcutils.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcutils.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcalignmentfile.pyx to pysam/libcalignmentfile.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcalignmentfile.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: pysam/libcalignmentfile.pyx:2573:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2578:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2583:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2622:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2627:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation warning: pysam/libcalignmentfile.pyx:2632:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation cythoning pysam/libcsamfile.pyx to pysam/libcsamfile.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcsamfile.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcalignedsegment.pyx to pysam/libcalignedsegment.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcalignedsegment.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libctabix.pyx to pysam/libctabix.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libctabix.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcfaidx.pyx to pysam/libcfaidx.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcfaidx.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcbcf.pyx to pysam/libcbcf.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcbcf.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcbgzf.pyx to pysam/libcbgzf.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcbgzf.pyx tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libctabixproxies.pyx to pysam/libctabixproxies.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libctabixproxies.pxd tree = Parsing.p_module(s, pxd, full_module_name) cythoning pysam/libcvcf.pyx to pysam/libcvcf.c /usr/lib/python3.11/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /builddir/build/BUILD/pysam-0.19.1/pysam/libcvcf.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: pysam/libcvcf.pyx:1083:27: Unreachable code creating htslib/config_vars.h for 'pysam.libchtslib' extension building 'pysam.libchtslib' extension creating build/temp.linux-i686-cpython-311 creating build/temp.linux-i686-cpython-311/htslib creating build/temp.linux-i686-cpython-311/htslib/cram creating build/temp.linux-i686-cpython-311/htslib/htscodecs creating build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs creating build/temp.linux-i686-cpython-311/pysam gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/bcf_sr_sort.c -o build/temp.linux-i686-cpython-311/htslib/bcf_sr_sort.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/bgzf.c -o build/temp.linux-i686-cpython-311/htslib/bgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/cram_codecs.c -o build/temp.linux-i686-cpython-311/htslib/cram/cram_codecs.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/cram_decode.c -o build/temp.linux-i686-cpython-311/htslib/cram/cram_decode.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/cram_encode.c -o build/temp.linux-i686-cpython-311/htslib/cram/cram_encode.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/cram_external.c -o build/temp.linux-i686-cpython-311/htslib/cram/cram_external.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/cram_index.c -o build/temp.linux-i686-cpython-311/htslib/cram/cram_index.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/cram_io.c -o build/temp.linux-i686-cpython-311/htslib/cram/cram_io.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/cram_stats.c -o build/temp.linux-i686-cpython-311/htslib/cram/cram_stats.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/mFILE.c -o build/temp.linux-i686-cpython-311/htslib/cram/mFILE.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/open_trace_file.c -o build/temp.linux-i686-cpython-311/htslib/cram/open_trace_file.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/pooled_alloc.c -o build/temp.linux-i686-cpython-311/htslib/cram/pooled_alloc.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/cram/string_alloc.c -o build/temp.linux-i686-cpython-311/htslib/cram/string_alloc.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/errmod.c -o build/temp.linux-i686-cpython-311/htslib/errmod.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/faidx.c -o build/temp.linux-i686-cpython-311/htslib/faidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/header.c -o build/temp.linux-i686-cpython-311/htslib/header.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/hfile.c -o build/temp.linux-i686-cpython-311/htslib/hfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/hts.c -o build/temp.linux-i686-cpython-311/htslib/hts.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement htslib/hts.c: In function ‘hts_hopen’: htslib/hts.c:1355:31: warning: ‘%s’ directive output between 503 and 2147483645 bytes may cause result to exceed ‘INT_MAX’ [-Wformat-truncation=] 1355 | snprintf(fn2, fn2_len, "%s%s", prefix, fn); | ^~ In file included from /usr/include/stdio.h:906, from htslib/hts.c:30: In function ‘snprintf’, inlined from ‘hts_crypt4gh_redirect’ at htslib/hts.c:1355:5, inlined from ‘hts_hopen’ at htslib/hts.c:1414:21: /usr/include/bits/stdio2.h:54:10: note: ‘__snprintf_chk’ output between 513 and 2147483655 bytes into a destination of size 2147483655 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/hts_expr.c -o build/temp.linux-i686-cpython-311/htslib/hts_expr.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/hts_os.c -o build/temp.linux-i686-cpython-311/htslib/hts_os.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/htscodecs/htscodecs/arith_dynamic.c -o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/arith_dynamic.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/htscodecs/htscodecs/fqzcomp_qual.c -o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/fqzcomp_qual.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/htscodecs/htscodecs/htscodecs.c -o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/htscodecs.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/htscodecs/htscodecs/pack.c -o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/pack.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/htscodecs/htscodecs/rANS_static.c -o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/rANS_static.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/htscodecs/htscodecs/rANS_static4x16pr.c -o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/rANS_static4x16pr.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement In file included from htslib/htscodecs/htscodecs/rANS_static4x16pr.c:74: In function ‘RansEncPutSymbol’, inlined from ‘rans_compress_O1_4x16.isra.0’ at htslib/htscodecs/htscodecs/rANS_static4x16pr.c:810:2: htslib/htscodecs/htscodecs/rANS_word.h:303:28: warning: ‘ptr’ may be used uninitialized [-Wmaybe-uninitialized] 303 | *pptr = (uint8_t *)(ptr-c); | ~~~~^~~ htslib/htscodecs/htscodecs/rANS_static4x16pr.c: In function ‘rans_compress_O1_4x16.isra.0’: htslib/htscodecs/htscodecs/rANS_static4x16pr.c:793:14: note: ‘ptr’ was declared here 793 | uint8_t* ptr = out_end; | ^~~ gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/htscodecs/htscodecs/rle.c -o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/rle.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/htscodecs/htscodecs/tokenise_name3.c -o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/tokenise_name3.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/kfunc.c -o build/temp.linux-i686-cpython-311/htslib/kfunc.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/kstring.c -o build/temp.linux-i686-cpython-311/htslib/kstring.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/md5.c -o build/temp.linux-i686-cpython-311/htslib/md5.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/multipart.c -o build/temp.linux-i686-cpython-311/htslib/multipart.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/probaln.c -o build/temp.linux-i686-cpython-311/htslib/probaln.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/realn.c -o build/temp.linux-i686-cpython-311/htslib/realn.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/regidx.c -o build/temp.linux-i686-cpython-311/htslib/regidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/region.c -o build/temp.linux-i686-cpython-311/htslib/region.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/sam.c -o build/temp.linux-i686-cpython-311/htslib/sam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/synced_bcf_reader.c -o build/temp.linux-i686-cpython-311/htslib/synced_bcf_reader.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/tbx.c -o build/temp.linux-i686-cpython-311/htslib/tbx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/textutils.c -o build/temp.linux-i686-cpython-311/htslib/textutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/thread_pool.c -o build/temp.linux-i686-cpython-311/htslib/thread_pool.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/vcf.c -o build/temp.linux-i686-cpython-311/htslib/vcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/vcf_sweep.c -o build/temp.linux-i686-cpython-311/htslib/vcf_sweep.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c htslib/vcfutils.c -o build/temp.linux-i686-cpython-311/htslib/vcfutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/htslib_util.c -o build/temp.linux-i686-cpython-311/pysam/htslib_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libchtslib.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/htslib/bcf_sr_sort.o build/temp.linux-i686-cpython-311/htslib/bgzf.o build/temp.linux-i686-cpython-311/htslib/cram/cram_codecs.o build/temp.linux-i686-cpython-311/htslib/cram/cram_decode.o build/temp.linux-i686-cpython-311/htslib/cram/cram_encode.o build/temp.linux-i686-cpython-311/htslib/cram/cram_external.o build/temp.linux-i686-cpython-311/htslib/cram/cram_index.o build/temp.linux-i686-cpython-311/htslib/cram/cram_io.o build/temp.linux-i686-cpython-311/htslib/cram/cram_stats.o build/temp.linux-i686-cpython-311/htslib/cram/mFILE.o build/temp.linux-i686-cpython-311/htslib/cram/open_trace_file.o build/temp.linux-i686-cpython-311/htslib/cram/pooled_alloc.o build/temp.linux-i686-cpython-311/htslib/cram/string_alloc.o build/temp.linux-i686-cpython-311/htslib/errmod.o build/temp.linux-i686-cpython-311/htslib/faidx.o build/temp.linux-i686-cpython-311/htslib/header.o build/temp.linux-i686-cpython-311/htslib/hfile.o build/temp.linux-i686-cpython-311/htslib/hts.o build/temp.linux-i686-cpython-311/htslib/hts_expr.o build/temp.linux-i686-cpython-311/htslib/hts_os.o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/arith_dynamic.o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/fqzcomp_qual.o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/htscodecs.o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/pack.o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/rANS_static.o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/rANS_static4x16pr.o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/rle.o build/temp.linux-i686-cpython-311/htslib/htscodecs/htscodecs/tokenise_name3.o build/temp.linux-i686-cpython-311/htslib/kfunc.o build/temp.linux-i686-cpython-311/htslib/kstring.o build/temp.linux-i686-cpython-311/htslib/md5.o build/temp.linux-i686-cpython-311/htslib/multipart.o build/temp.linux-i686-cpython-311/htslib/probaln.o build/temp.linux-i686-cpython-311/htslib/realn.o build/temp.linux-i686-cpython-311/htslib/regidx.o build/temp.linux-i686-cpython-311/htslib/region.o build/temp.linux-i686-cpython-311/htslib/sam.o build/temp.linux-i686-cpython-311/htslib/synced_bcf_reader.o build/temp.linux-i686-cpython-311/htslib/tbx.o build/temp.linux-i686-cpython-311/htslib/textutils.o build/temp.linux-i686-cpython-311/htslib/thread_pool.o build/temp.linux-i686-cpython-311/htslib/vcf.o build/temp.linux-i686-cpython-311/htslib/vcf_sweep.o build/temp.linux-i686-cpython-311/htslib/vcfutils.o build/temp.linux-i686-cpython-311/pysam/htslib_util.o build/temp.linux-i686-cpython-311/pysam/libchtslib.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -o build/lib.linux-i686-cpython-311/pysam/libchtslib.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN creating samtools/samtools_config_vars.h for 'pysam.libcsamtools' extension building 'pysam.libcsamtools' extension creating build/temp.linux-i686-cpython-311/samtools creating build/temp.linux-i686-cpython-311/samtools/lz4 gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcsamtools.c -o build/temp.linux-i686-cpython-311/pysam/libcsamtools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/amplicon_stats.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/amplicon_stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam2depth.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam2depth.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_addrprg.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_addrprg.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_ampliconclip.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_ampliconclip.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_aux.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_aux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_cat.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_cat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_color.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_color.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_consensus.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_fastq.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_fastq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_flags.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_flags.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_import.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_import.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_index.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_index.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_lpileup.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_lpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_markdup.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_markdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_mate.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_mate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_md.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_md.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_plbuf.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_plbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_plcmd.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_plcmd.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_quickcheck.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_quickcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_reheader.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_rmdup.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_rmdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_rmdupse.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_rmdupse.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_samples.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_samples.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_sort.c.pysam.c -o build/temp.linux-i686-cpython-311/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:2232:16: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 2232 | seq[j] = comp[tmp]; | ~~~~~~~^~~~~~~~~~~ samtools/bam_sort.c.pysam.c:2219:10: note: at offset 2147483647 into destination object ‘seq_’ of size 10000 2219 | char seq_[10000], *seq = seq_; | ^~~~ gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_split.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_split.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bam_stat.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bam_stat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bamshuf.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bamshuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bamtk.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bamtk.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bedcov.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bedcov.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/bedidx.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/bedidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/consensus_pileup.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/consensus_pileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/coverage.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/coverage.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/cut_target.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/cut_target.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/dict.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/dict.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/faidx.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/faidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/lz4/lz4.c -o build/temp.linux-i686-cpython-311/samtools/lz4/lz4.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/padding.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/padding.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/phase.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/phase.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/sam_opts.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/sam_opts.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/sam_utils.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/sam_utils.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/sam_view.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/sam_view.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/sample.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/samtools.pysam.c -o build/temp.linux-i686-cpython-311/samtools/samtools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/stats.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/stats_isize.c.pysam.c -o build/temp.linux-i686-cpython-311/samtools/stats_isize.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c samtools/tmp_file.c.pysam.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcsamtools.o build/temp.linux-i686-cpython-311/samtools/amplicon_stats.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam2depth.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_addrprg.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_ampliconclip.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_aux.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_cat.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_color.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_consensus.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_fastq.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_flags.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_import.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_index.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_lpileup.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_markdup.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_mate.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_md.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_plbuf.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_plcmd.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_quickcheck.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_reheader.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_rmdup.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_rmdupse.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_samples.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_sort.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_split.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bam_stat.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bamshuf.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bamtk.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bedcov.c.pysam.o build/temp.linux-i686-cpython-311/samtools/bedidx.c.pysam.o build/temp.linux-i686-cpython-311/samtools/consensus_pileup.c.pysam.o build/temp.linux-i686-cpython-311/samtools/coverage.c.pysam.o build/temp.linux-i686-cpython-311/samtools/cut_target.c.pysam.o build/temp.linux-i686-cpython-311/samtools/dict.c.pysam.o build/temp.linux-i686-cpython-311/samtools/faidx.c.pysam.o build/temp.linux-i686-cpython-311/samtools/lz4/lz4.o build/temp.linux-i686-cpython-311/samtools/padding.c.pysam.o build/temp.linux-i686-cpython-311/samtools/phase.c.pysam.o build/temp.linux-i686-cpython-311/samtools/sam_opts.c.pysam.o build/temp.linux-i686-cpython-311/samtools/sam_utils.c.pysam.o build/temp.linux-i686-cpython-311/samtools/sam_view.c.pysam.o build/temp.linux-i686-cpython-311/samtools/sample.c.pysam.o build/temp.linux-i686-cpython-311/samtools/samtools.pysam.o build/temp.linux-i686-cpython-311/samtools/stats.c.pysam.o build/temp.linux-i686-cpython-311/samtools/stats_isize.c.pysam.o build/temp.linux-i686-cpython-311/samtools/tmp_file.c.pysam.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcsamtools.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN samtools/bam_sort.c.pysam.c: In function ‘reverse_complement.isra’: samtools/bam_sort.c.pysam.c:2232:16: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 2232 | seq[j] = comp[tmp]; | ^ samtools/bam_sort.c.pysam.c:2219:10: note: at offset 2147483647 into destination object ‘seq_’ of size 10000 2219 | char seq_[10000], *seq = seq_; | ^ building 'pysam.libcbcftools' extension creating build/temp.linux-i686-cpython-311/bcftools gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/HMM.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/HMM.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/abuf.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/abuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/bam2bcf.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/bam2bcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/bam2bcf_indel.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/bam2bcf_indel.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/bam_sample.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/bam_sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/bcftools.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/bcftools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/bin.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/bin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/ccall.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/ccall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/cols.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/cols.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 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-I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/consensus.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign 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-I/usr/include/python3.11 -c bcftools/dist.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/dist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security 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-fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/main.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/main.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables 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-mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/mcall.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/mcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g 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-fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/mpileup.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/mpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/ploidy.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/ploidy.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS 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-I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/prob1.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/prob1.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 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-I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/regidx.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/regidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign 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-I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/reheader.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection 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-I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/smpl_ilist.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/smpl_ilist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 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-I/usr/include/python3.11 -c bcftools/str_finder.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/str_finder.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/tabix.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/tabix.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/tsv2vcf.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/tsv2vcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfannotate.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfannotate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfbuf.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfcall.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfcnv.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfcnv.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfconcat.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfconcat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfconvert.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfconvert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcffilter.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcffilter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfgtcheck.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfgtcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfhead.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfhead.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfindex.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfindex.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfisec.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfisec.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfmerge.c.pysam.c -o build/temp.linux-i686-cpython-311/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:749:34: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 749 | 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-0.19.1/htslib/htslib/kstring.h:30, from /builddir/build/BUILD/pysam-0.19.1/htslib/htslib/hts.h:37, from /builddir/build/BUILD/pysam-0.19.1/htslib/htslib/vcf.h:39, from bcftools/vcfmerge.c.pysam.c:35: /usr/include/stdlib.h:556:14: note: in a call to allocation function ‘calloc’ declared here 556 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfnorm.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfnorm.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfplugin.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfplugin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfquery.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfquery.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfroh.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfroh.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfsom.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfsom.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfsort.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfstats.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfstats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcfview.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcfview.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/vcmp.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/vcmp.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c bcftools/version.c.pysam.c -o build/temp.linux-i686-cpython-311/bcftools/version.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcbcftools.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/bcftools/HMM.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/abuf.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/bam2bcf.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/bam2bcf_indel.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/bam_sample.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/bcftools.pysam.o build/temp.linux-i686-cpython-311/bcftools/bin.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/ccall.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/cols.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/consensus.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/convert.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/csq.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/dist.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/em.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/extsort.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/filter.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/gvcf.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/hclust.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/kmin.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/main.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/mcall.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/mpileup.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/ploidy.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/prob1.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/regidx.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/reheader.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/smpl_ilist.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/str_finder.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/tabix.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/tsv2vcf.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfannotate.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfbuf.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfcall.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfcnv.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfconcat.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfconvert.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcffilter.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfgtcheck.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfhead.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfindex.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfisec.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfmerge.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfnorm.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfplugin.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfquery.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfroh.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfsom.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfsort.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfstats.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcfview.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/vcmp.c.pysam.o build/temp.linux-i686-cpython-311/bcftools/version.c.pysam.o build/temp.linux-i686-cpython-311/pysam/libcbcftools.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcbcftools.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN bcftools/vcfmerge.c.pysam.c: In function ‘maux_init’: bcftools/vcfmerge.c.pysam.c:749:34: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 749 | 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:556:14: note: in a call to allocation function ‘calloc’ declared here 556 | extern void *calloc (size_t __nmemb, size_t __size) | ^ building 'pysam.libcutils' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcutils.c -o build/temp.linux-i686-cpython-311/pysam/libcutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/pysam_util.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcutils.o build/temp.linux-i686-cpython-311/pysam/pysam_util.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcsamtools.cpython-311-i386-linux-gnu -lcbcftools.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcutils.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libcalignmentfile' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcalignmentfile.c -o build/temp.linux-i686-cpython-311/pysam/libcalignmentfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcalignmentfile.c: In function ‘__pyx_f_5pysam_17libcalignmentfile_20IteratorRowSelection_cnext’: pysam/libcalignmentfile.c:28511:16: warning: ignoring return value of ‘bgzf_seek’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 28511 | (void)(bgzf_seek(hts_get_bgzfp(__pyx_v_self->__pyx_base.htsfile), __pyx_v_pos, 0)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcalignmentfile.c: In function ‘__pyx_pf_5pysam_17libcalignmentfile_13AlignmentFile_6_open’: pysam/libcalignmentfile.c:14228:20: warning: ignoring return value of ‘sam_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 14228 | (void)(sam_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_hdr)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcalignmentfile.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcalignmentfile.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libcsamfile' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcsamfile.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcsamfile.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcsamfile.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libcalignedsegment' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcalignedsegment.c -o build/temp.linux-i686-cpython-311/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:14652:10: warning: ignoring return value of ‘sam_parse1’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 14652 | (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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcalignedsegment.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcalignedsegment.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libctabix' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libctabix.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libctabix.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libctabix.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libcfaidx' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcfaidx.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcfaidx.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcfaidx.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libcbcf' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcbcf.c -o build/temp.linux-i686-cpython-311/pysam/libcbcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_6close’: pysam/libcbcf.c:67612:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 67612 | (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_4__dealloc__’: pysam/libcbcf.c:67337:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 67337 | (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcbcf.c: In function ‘__pyx_f_5pysam_7libcbcf_11VariantFile_write’: pysam/libcbcf.c:72455:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 72455 | (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:35431:11: warning: ignoring return value of ‘bcf_hrec_add_key’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 35431 | bcf_hrec_add_key(__pyx_v_hrec, __pyx_t_17, ((int)__pyx_t_18)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcbcf.c:35457:11: warning: ignoring return value of ‘bcf_hrec_set_val’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 35457 | bcf_hrec_set_val(__pyx_v_hrec, (__pyx_v_hrec->nkeys - 1), __pyx_t_19, ((int)__pyx_t_18), __pyx_v_quoted); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcbcf.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcbcf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libcbgzf' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcbgzf.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcbgzf.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcbgzf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libctabixproxies' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libctabixproxies.c -o build/temp.linux-i686-cpython-311/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 -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libctabixproxies.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libctabixproxies.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN building 'pysam.libcvcf' extension gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -I/builddir/build/BUILD/pysam-0.19.1/htslib -I/builddir/build/BUILD/pysam-0.19.1/samtools -I/builddir/build/BUILD/pysam-0.19.1/samtools/lz4 -I/builddir/build/BUILD/pysam-0.19.1/bcftools -I/builddir/build/BUILD/pysam-0.19.1/pysam -I/builddir/build/BUILD/pysam-0.19.1 -I/usr/include/python3.11 -c pysam/libcvcf.c -o build/temp.linux-i686-cpython-311/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:25229:16: warning: ‘__pyx_v_qual’ may be used uninitialized [-Wmaybe-uninitialized] 25229 | __pyx_t_12 = PyFloat_FromDouble(__pyx_v_qual); if (unlikely(!__pyx_t_12)) __PYX_ERR(0, 873, __pyx_L1_error) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pysam/libcvcf.c:19949:10: note: ‘__pyx_v_qual’ was declared here 19949 | double __pyx_v_qual; | ^~~~~~~~~~~~ gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-i686-cpython-311/pysam/libcvcf.o -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1/pysam -L/builddir/build/BUILD/pysam-0.19.1 -L/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-3.11/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -Lbuild/lib.linux-i686-cpython-311/pysam -L/usr/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o build/lib.linux-i686-cpython-311/pysam/libcvcf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN ++ echo /builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-cpython-311 + PYTHONPATH=/builddir/build/BUILD/pysam-0.19.1/build/lib.linux-i686-cpython-311 + sphinx-build-3 doc html Running Sphinx v5.3.0 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/3.11/objects.inv... WARNING: failed to reach any of the inventories with the following issues: intersphinx inventory 'https://docs.python.org/3.11/objects.inv' not fetchable due to : HTTPSConnectionPool(host='docs.python.org', port=443): Max retries exceeded with url: /3.11/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 building [html]: targets for 9 source files that are out of date updating environment: [new config] 9 added, 0 changed, 0 removed reading sources... [ 11%] api reading sources... [ 22%] benchmarking reading sources... [ 33%] developer reading sources... [ 44%] faq reading sources... [ 55%] glossary reading sources... [ 66%] index reading sources... [ 77%] installation reading sources... [ 88%] release reading sources... [100%] usage looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 11%] api writing output... [ 22%] benchmarking writing output... [ 33%] developer writing output... [ 44%] faq writing output... [ 55%] glossary writing output... [ 66%] index writing output... [ 77%] installation writing output... [ 88%] release writing output... [100%] usage generating indices... genindex done writing additional pages... search done copying static files... done copying extra files... 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.ZPGWdV + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386 ++ dirname /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/gfortran/modules' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + 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/lib: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd pysam-0.19.1 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-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-0.19.1-3.fc38.i386 --prefix /usr # 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,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection # 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 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... 64 checking shared library type for unknown-Linux... plain .so 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 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... 64 checking shared library type for unknown-Linux... plain .so 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 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_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.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/python3.11/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running install_lib creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11 creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/__pycache__ copying build/lib.linux-i686-cpython-311/pysam/__pycache__/version.cpython-311.pyc -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/__pycache__ copying build/lib.linux-i686-cpython-311/pysam/__pycache__/config.cpython-311.pyc -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/__pycache__ copying build/lib.linux-i686-cpython-311/pysam/__pycache__/samtools.cpython-311.pyc -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/__pycache__ copying build/lib.linux-i686-cpython-311/pysam/__pycache__/Pileup.cpython-311.pyc -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/__pycache__ copying build/lib.linux-i686-cpython-311/pysam/__pycache__/utils.cpython-311.pyc -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/__pycache__ copying build/lib.linux-i686-cpython-311/pysam/__pycache__/__init__.cpython-311.pyc -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/__pycache__ copying build/lib.linux-i686-cpython-311/pysam/libcvcf.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libctabixproxies.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcbgzf.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcbcf.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcfaidx.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libctabix.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcalignedsegment.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcsamfile.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcalignmentfile.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcutils.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcbcftools.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcsamtools.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libchtslib.cpython-311-i386-linux-gnu.so -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcalignedsegment.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcalignmentfile.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcbcf.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcbcftools.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcbgzf.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcfaidx.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libchtslib.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcsamfile.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcsamtools.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libctabix.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libctabixproxies.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcutils.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcvcf.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/version.pyi -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/py.typed -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/cbcftools_util.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/csamtools_util.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/htslib_util.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/pysam_stream.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/pysam_util.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/version.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcalignedsegment.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcalignmentfile.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcbcf.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcbcftools.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcfaidx.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libchtslib.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcsamfile.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcsamtools.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libctabix.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libctabixproxies.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcutils.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/libcvcf.pxd -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/bgzf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/cram.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/faidx.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/hfile.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/hts.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/hts_defs.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/hts_endian.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/hts_expr.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/hts_log.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/hts_os.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/kbitset.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/kfunc.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/khash.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/khash_str2int.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/klist.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/knetfile.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/kroundup.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/kseq.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/ksort.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/kstring.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/regidx.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/sam.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/synced_bcf_reader.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/tbx.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/thread_pool.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/vcf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/vcf_sweep.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/htslib/vcfutils.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/bcf_sr_sort.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/header.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/hfile_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/hts_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/sam_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/textutils_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/thread_pool_internal.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib copying build/lib.linux-i686-cpython-311/pysam/include/htslib/config.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/htslib creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/HMM.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/abuf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/bam2bcf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/bam_sample.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/bcftools.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/bcftools.pysam.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/bin.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/call.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/cols.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/convert.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/dbuf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/dist.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/extsort.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/filter.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/gvcf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/hclust.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/hex.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/khash_str2str.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/kheap.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/kmin.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/mw.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/ploidy.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/prob1.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/rbuf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/regidx.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/smpl_ilist.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/str_finder.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/tsv2vcf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/utlist.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/variantkey.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/vcfbuf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/vcmp.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools copying build/lib.linux-i686-cpython-311/pysam/include/bcftools/config.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/bcftools creating /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/bam.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/bam_ampliconclip.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/bam_lpileup.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/bam_plbuf.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/bedidx.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/consensus_pileup.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/sam_opts.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/sample.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/samtools.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/samtools.pysam.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/splaysort.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/stats_isize.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/tmp_file.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/samtools/config.h -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/samtools copying build/lib.linux-i686-cpython-311/pysam/include/__init__.py -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include copying build/lib.linux-i686-cpython-311/pysam/Pileup.py -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/__init__.py -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/bcftools.py -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/samtools.py -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/utils.py -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/version.py -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam copying build/lib.linux-i686-cpython-311/pysam/config.py -> /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam byte-compiling /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/include/__init__.py to __init__.cpython-311.pyc byte-compiling /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/bcftools.py to bcftools.cpython-311.pyc writing byte-compilation script '/tmp/tmp7qlvchug.py' /usr/bin/python3 /tmp/tmp7qlvchug.py removing /tmp/tmp7qlvchug.py running install_egg_info running egg_info creating pysam.egg-info writing pysam.egg-info/PKG-INFO writing dependency_links to pysam.egg-info/dependency_links.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' 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-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam-0.19.1-py3.11.egg-info running install_scripts + rm -rfv /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/bin/__pycache__ + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 0.19.1-3.fc38 --unique-debug-suffix -0.19.1-3.fc38.i386 --unique-debug-src-base python-pysam-0.19.1-3.fc38.i386 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/pysam-0.19.1 extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcalignmentfile.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcalignedsegment.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcbcf.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcbcftools.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcbgzf.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcfaidx.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libchtslib.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcsamfile.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcsamtools.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libctabix.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libctabixproxies.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcutils.cpython-311-i386-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11/site-packages/pysam/libcvcf.cpython-311-i386-linux-gnu.so original debug info size: 22148kB, size after compression: 20948kB /usr/bin/sepdebugcrcfix: Updated 13 CRC32s, 0 CRC32s did match. 41871 blocks + /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 + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 Bytecompiling .py files below /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/debug/usr/lib/python3.11 using python3.11 Bytecompiling .py files below /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/lib/python3.11 using python3.11 + /usr/lib/rpm/redhat/brp-python-hardlink Processing files: python3-pysam-0.19.1-3.fc38.i686 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.RzIoTp + umask 022 + cd /builddir/build/BUILD + cd pysam-0.19.1 + DOCDIR=/builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/doc/python3-pysam + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/doc/python3-pysam + cp -pr README.rst /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/doc/python3-pysam + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.kx055K + umask 022 + cd /builddir/build/BUILD + cd pysam-0.19.1 + LICENSEDIR=/builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/licenses/python3-pysam + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/licenses/python3-pysam + cp -pr COPYING /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/licenses/python3-pysam + RPM_EC=0 ++ jobs -p + exit 0 Provides: bundled(bcftools) = 1.15.1 bundled(htslib) = 1.15.1 bundled(samtools) = 1.15.1 libcalignedsegment.cpython-311-i386-linux-gnu.so libcalignmentfile.cpython-311-i386-linux-gnu.so libcbcf.cpython-311-i386-linux-gnu.so libcbcftools.cpython-311-i386-linux-gnu.so libcbgzf.cpython-311-i386-linux-gnu.so libcfaidx.cpython-311-i386-linux-gnu.so libchtslib.cpython-311-i386-linux-gnu.so libcsamfile.cpython-311-i386-linux-gnu.so libcsamtools.cpython-311-i386-linux-gnu.so libctabix.cpython-311-i386-linux-gnu.so libctabixproxies.cpython-311-i386-linux-gnu.so libcutils.cpython-311-i386-linux-gnu.so libcvcf.cpython-311-i386-linux-gnu.so python-pysam = 0.19.1-3.fc38 python3-pysam = 0.19.1-3.fc38 python3-pysam(x86-32) = 0.19.1-3.fc38 python3.11-pysam = 0.19.1-3.fc38 python3.11dist(pysam) = 0.19.1 python3dist(pysam) = 0.19.1 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 libc.so.6 libc.so.6(GLIBC_2.0) libc.so.6(GLIBC_2.1) libc.so.6(GLIBC_2.1.3) libc.so.6(GLIBC_2.11) libc.so.6(GLIBC_2.2) libc.so.6(GLIBC_2.3) libc.so.6(GLIBC_2.3.2) libc.so.6(GLIBC_2.3.4) libc.so.6(GLIBC_2.33) libc.so.6(GLIBC_2.34) libc.so.6(GLIBC_2.4) libc.so.6(GLIBC_2.7) libcbcftools.cpython-311-i386-linux-gnu.so libchtslib.cpython-311-i386-linux-gnu.so libcsamtools.cpython-311-i386-linux-gnu.so liblzma.so.5 liblzma.so.5(XZ_5.0) libm.so.6 libm.so.6(GLIBC_2.0) libm.so.6(GLIBC_2.1) libm.so.6(GLIBC_2.23) libm.so.6(GLIBC_2.29) libz.so.1 libz.so.1(ZLIB_1.2.3.3) python(abi) = 3.11 rtld(GNU_HASH) Obsoletes: python-pysam < 0.19.1-3.fc38 Processing files: python3-pysam-devel-0.19.1-3.fc38.i686 Provides: python-pysam-devel = 0.19.1-3.fc38 python3-pysam-devel = 0.19.1-3.fc38 python3-pysam-devel(x86-32) = 0.19.1-3.fc38 python3.11-pysam-devel = 0.19.1-3.fc38 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: python(abi) = 3.11 Processing files: python-pysam-doc-0.19.1-3.fc38.noarch Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.nzbrC2 + umask 022 + cd /builddir/build/BUILD + cd pysam-0.19.1 + DOCDIR=/builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/doc/python-pysam-doc + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/doc/python-pysam-doc + cp -pr html /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386/usr/share/doc/python-pysam-doc + RPM_EC=0 ++ jobs -p + exit 0 Provides: python-pysam-doc = 0.19.1-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: python-pysam-debugsource-0.19.1-3.fc38.i686 Provides: python-pysam-debugsource = 0.19.1-3.fc38 python-pysam-debugsource(x86-32) = 0.19.1-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: python3-pysam-debuginfo-0.19.1-3.fc38.i686 Provides: debuginfo(build-id) = 105b0c84def3304868747c5b7c66b63566c9cd10 debuginfo(build-id) = 11ed1dc9104d138e10249ab3723490245ab4ccd9 debuginfo(build-id) = 3ba05b7cbb4712fa2b6b0cec353ed2f6d7acaccb debuginfo(build-id) = 5197153f6c15e6a6197783b565ef70e19077b36b debuginfo(build-id) = 869e48f310b6010539a94ca155b0b6c95c79eb27 debuginfo(build-id) = 8f228a5add4cd90cb06591a38d82c2bdac5d8644 debuginfo(build-id) = 9487b61ef28ce83ebe449e6ff7e812638ed7a85d debuginfo(build-id) = 96996457d642c427f1d3b01a12e688ab2700cd2c debuginfo(build-id) = b21e5f691c47e65f9fe7ecff34cf0241c5389798 debuginfo(build-id) = bb355c2e002af2671a43324aaa0027e6fff06664 debuginfo(build-id) = d482dd438d437db9f99d9a604afbe22952f5f9db debuginfo(build-id) = e208fa5074e0e8f265d4b0e95718b4ea35b4eca9 debuginfo(build-id) = fb667269fb2b6cfb0c8f48423232efd6451b614c libcalignedsegment.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcalignmentfile.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcbcf.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcbcftools.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcbgzf.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcfaidx.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libchtslib.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcsamfile.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcsamtools.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libctabix.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libctabixproxies.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcutils.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug libcvcf.cpython-311-i386-linux-gnu.so-0.19.1-3.fc38.i386.debug python-pysam-debuginfo = 0.19.1-3.fc38 python3-pysam-debuginfo = 0.19.1-3.fc38 python3-pysam-debuginfo(x86-32) = 0.19.1-3.fc38 python3.11-pysam-debuginfo = 0.19.1-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: python-pysam-debugsource(x86-32) = 0.19.1-3.fc38 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386 Wrote: /builddir/build/RPMS/python3-pysam-debuginfo-0.19.1-3.fc38.i686.rpm Wrote: /builddir/build/RPMS/python3-pysam-0.19.1-3.fc38.i686.rpm Wrote: /builddir/build/RPMS/python-pysam-debugsource-0.19.1-3.fc38.i686.rpm Wrote: /builddir/build/RPMS/python3-pysam-devel-0.19.1-3.fc38.i686.rpm Wrote: /builddir/build/RPMS/python-pysam-doc-0.19.1-3.fc38.noarch.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.zKhuDW + umask 022 + cd /builddir/build/BUILD + cd pysam-0.19.1 + /usr/bin/rm -rf /builddir/build/BUILDROOT/python-pysam-0.19.1-3.fc38.i386 + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.wIXd67 + umask 022 + cd /builddir/build/BUILD + rm -rf pysam-0.19.1 pysam-0.19.1.gemspec + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild python-pysam-0.19.1-3.fc38.src.rpm Finish: build phase for python-pysam-0.19.1-3.fc38.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-i686-1672139028.021383/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-i686-1672139028.021383/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-i686-1672139028.021383/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/python-pysam-0.19.1-3.fc38.src.rpm) Config(child) 5 minutes 40 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