Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c14e' (ED25519) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 5280085 --chroot epel-9-x86_64 --detached Version: 0.62 PID: 5020 Logging PID: 5021 Task: {'appstream': True, 'background': False, 'build_id': 5280085, 'buildroot_pkgs': [], 'chroot': 'epel-9-x86_64', 'enable_net': False, 'fedora_review': False, 'git_hash': '8f513dc34115d40ea90b81c36fafe872dd6d8fdc', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/aminasyan/el9-collection/htslib', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'htslib', 'package_version': '1.15.1-1.el8', 'project_dirname': 'el9-collection', 'project_name': 'el9-collection', 'project_owner': 'aminasyan', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/aminasyan/el9-collection/epel-9-x86_64/', 'id': 'copr_base', 'name': 'Copr repository'}, {'baseurl': 'https://download.copr.fedorainfracloud.org/results/aminasyan/el9-collection/epel-9-x86_64/', 'id': 'copr_aminasyan_el9_collection', 'name': 'Additional repo copr_aminasyan_el9_collection'}, {'baseurl': 'http://mirror.stream.centos.org/SIGs/9-stream/virt/$basearch/ovirt-45', 'id': 'http_mirror_stream_centos_org_SIGs_9_stream_virt_basearch_ovirt_45', 'name': 'Additional repo http_mirror_stream_centos_org_SIGs_9_stream_virt_basearch_ovirt_45'}], 'sandbox': 'aminasyan/el9-collection--aminasyan', 'source_json': {}, 'source_type': None, 'submitter': 'aminasyan', 'tags': [], 'task_id': '5280085-epel-9-x86_64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/aminasyan/el9-collection/htslib /var/lib/copr-rpmbuild/workspace/workdir-zhbzcdlu/htslib --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/aminasyan/el9-collection/htslib', '/var/lib/copr-rpmbuild/workspace/workdir-zhbzcdlu/htslib', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-zhbzcdlu/htslib'... Running: git checkout 8f513dc34115d40ea90b81c36fafe872dd6d8fdc cmd: ['git', 'checkout', '8f513dc34115d40ea90b81c36fafe872dd6d8fdc'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-zhbzcdlu/htslib rc: 0 stdout: stderr: Note: switching to '8f513dc34115d40ea90b81c36fafe872dd6d8fdc'. 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 8f513dc automatic import of htslib Running: copr-distgit-client sources cmd: ['copr-distgit-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-zhbzcdlu/htslib 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 htslib-1.15.1.tar.bz2 INFO: Calling: curl -H Pragma: -o htslib-1.15.1.tar.bz2 --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/aminasyan/el9-collection/htslib/htslib-1.15.1.tar.bz2/md5/9ea5cff8edcebb01f31dd02bd4d2a082/htslib-1.15.1.tar.bz2 % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 4044k 100 4044k 0 0 27.1M 0 --:--:-- --:--:-- --:--:-- 27.2M INFO: Reading stdout from command: md5sum htslib-1.15.1.tar.bz2 /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated Running (timeout=18000): unbuffer mock --buildsrpm --spec /var/lib/copr-rpmbuild/workspace/workdir-zhbzcdlu/htslib/htslib.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-zhbzcdlu/htslib --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1674273919.724043 -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-zhbzcdlu/htslib/htslib.spec) Config(rhel+epel-9-x86_64) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1674273919.724043/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 Copr repository 1.9 MB/s | 592 kB 00:00 Additional repo copr_aminasyan_el9_collection 3.3 MB/s | 592 kB 00:00 Additional repo http_mirror_stream_centos_org_S 2.2 MB/s | 856 kB 00:00 Red Hat Enterprise Linux - BaseOS 8.9 MB/s | 6.9 MB 00:00 Red Hat Enterprise Linux - AppStream 16 MB/s | 15 MB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 3.8 MB/s | 4.3 MB 00:01 Extra Packages for Enterprise Linux 9 - x86_64 3.7 MB/s | 13 MB 00:03 Dependencies resolved. ========================================================================================= Package Arch Version Repo Size ========================================================================================= Installing: dnf noarch 4.12.0-4.el9 baseos 468 k dnf-plugins-core noarch 4.1.0-3.el9 baseos 38 k subscription-manager x86_64 1.29.30-1.el9 baseos 903 k Installing dependencies: acl x86_64 2.3.1-3.el9 baseos 77 k alternatives x86_64 1.20-2.el9 baseos 40 k audit-libs x86_64 3.0.7-103.el9 baseos 121 k basesystem noarch 11-13.el9 baseos 8.0 k bash x86_64 5.1.8-5.el9 baseos 1.7 M bzip2-libs x86_64 1.0.8-8.el9 baseos 42 k ca-certificates noarch 2022.2.54-90.2.el9_0 baseos 835 k coreutils x86_64 8.32-32.el9 baseos 1.2 M coreutils-common x86_64 8.32-32.el9 baseos 2.0 M cracklib x86_64 2.9.6-27.el9 baseos 99 k cracklib-dicts x86_64 2.9.6-27.el9 baseos 3.6 M crypto-policies noarch 20220815-1.git0fbe86f.el9 baseos 85 k cryptsetup-libs x86_64 2.4.3-5.el9 baseos 441 k curl x86_64 7.76.1-19.el9 baseos 300 k cyrus-sasl-lib x86_64 2.1.27-20.el9 baseos 774 k dbus x86_64 1:1.12.20-6.el9 baseos 7.9 k dbus-broker x86_64 28-7.el9 baseos 175 k dbus-common noarch 1:1.12.20-6.el9 baseos 18 k dbus-libs x86_64 1:1.12.20-6.el9 baseos 154 k device-mapper x86_64 9:1.02.185-3.el9 baseos 145 k device-mapper-libs x86_64 9:1.02.185-3.el9 baseos 180 k dmidecode x86_64 1:3.3-7.el9 baseos 93 k dnf-data noarch 4.12.0-4.el9 baseos 48 k elfutils-default-yama-scope noarch 0.187-5.el9 baseos 16 k elfutils-libelf x86_64 0.187-5.el9 baseos 199 k elfutils-libs x86_64 0.187-5.el9 baseos 257 k expat x86_64 2.4.9-1.el9_1 baseos 120 k file-libs x86_64 5.39-10.el9 baseos 592 k filesystem x86_64 3.16-2.el9 baseos 4.7 M gawk x86_64 5.1.0-6.el9 baseos 1.0 M gdbm-libs x86_64 1:1.19-4.el9 baseos 56 k glib2 x86_64 2.68.4-5.el9 baseos 2.7 M glibc x86_64 2.34-40.el9 baseos 1.9 M glibc-common x86_64 2.34-40.el9 baseos 313 k glibc-minimal-langpack x86_64 2.34-40.el9 baseos 29 k gmp x86_64 1:6.2.0-10.el9 baseos 320 k gnupg2 x86_64 2.3.3-2.el9_0 baseos 2.5 M gnutls x86_64 3.7.6-12.el9_0 baseos 1.0 M gobject-introspection x86_64 1.68.0-10.el9 baseos 254 k gpgme x86_64 1.15.1-6.el9 baseos 211 k grep x86_64 3.6-5.el9 baseos 273 k gzip x86_64 1.12-1.el9 baseos 167 k ima-evm-utils x86_64 1.4-4.el9 baseos 67 k json-c x86_64 0.14-11.el9 baseos 45 k json-glib x86_64 1.6.6-1.el9 baseos 167 k keyutils-libs x86_64 1.6.1-4.el9 baseos 34 k kmod-libs x86_64 28-7.el9 baseos 66 k krb5-libs x86_64 1.19.1-24.el9_1 baseos 733 k libacl x86_64 2.3.1-3.el9 baseos 26 k libarchive x86_64 3.5.3-3.el9 baseos 392 k libassuan x86_64 2.5.5-3.el9 baseos 71 k libattr x86_64 2.5.1-3.el9 baseos 20 k libblkid x86_64 2.37.4-9.el9 baseos 110 k libbrotli x86_64 1.0.9-6.el9 baseos 317 k libcap x86_64 2.48-8.el9 baseos 76 k libcap-ng x86_64 0.8.2-7.el9 baseos 36 k libcom_err x86_64 1.46.5-3.el9 baseos 29 k libcomps x86_64 0.1.18-1.el9 baseos 80 k libcurl x86_64 7.76.1-19.el9 baseos 289 k libdb x86_64 5.3.28-53.el9 baseos 740 k libdnf x86_64 0.67.0-3.el9 baseos 667 k libdnf-plugin-subscription-manager x86_64 1.29.30-1.el9 baseos 85 k libeconf x86_64 0.4.1-2.el9 baseos 31 k libevent x86_64 2.1.12-6.el9 baseos 268 k libfdisk x86_64 2.37.4-9.el9 baseos 156 k libffi x86_64 3.4.2-7.el9 baseos 40 k libgcc x86_64 11.3.1-2.1.el9 baseos 119 k libgcrypt x86_64 1.10.0-8.el9_0 baseos 513 k libgomp x86_64 11.3.1-2.1.el9 baseos 294 k libgpg-error x86_64 1.42-5.el9 baseos 220 k libidn2 x86_64 2.3.0-7.el9 baseos 105 k libksba x86_64 1.5.1-5.el9_0 baseos 158 k libmodulemd x86_64 2.13.0-2.el9 baseos 236 k libmount x86_64 2.37.4-9.el9 baseos 136 k libnghttp2 x86_64 1.43.0-5.el9 baseos 76 k libnl3 x86_64 3.7.0-1.el9 baseos 354 k libpsl x86_64 0.21.1-5.el9 baseos 66 k libpwquality x86_64 1.4.4-8.el9 baseos 123 k librepo x86_64 1.14.2-3.el9 baseos 91 k libreport-filesystem noarch 2.15.2-6.el9 baseos 15 k librhsm x86_64 0.0.3-7.el9 baseos 37 k libseccomp x86_64 2.5.2-2.el9 baseos 74 k libselinux x86_64 3.4-3.el9 baseos 88 k libsemanage x86_64 3.4-2.el9 baseos 121 k libsepol x86_64 3.4-1.1.el9 baseos 317 k libsigsegv x86_64 2.13-4.el9 baseos 30 k libsmartcols x86_64 2.37.4-9.el9 baseos 66 k libsolv x86_64 0.7.22-1.el9 baseos 395 k libssh x86_64 0.9.6-3.el9 baseos 210 k libssh-config noarch 0.9.6-3.el9 baseos 11 k libstdc++ x86_64 11.3.1-2.1.el9 baseos 766 k libtasn1 x86_64 4.16.0-7.el9 baseos 78 k libunistring x86_64 0.9.10-15.el9 baseos 499 k libuser x86_64 0.63-11.el9 baseos 410 k libutempter x86_64 1.2.1-6.el9 baseos 30 k libuuid x86_64 2.37.4-9.el9 baseos 30 k libverto x86_64 0.3.2-3.el9 baseos 24 k libxcrypt x86_64 4.4.18-3.el9 baseos 120 k libxml2 x86_64 2.9.13-2.el9 baseos 752 k libyaml x86_64 0.2.5-7.el9 baseos 63 k libzstd x86_64 1.5.1-2.el9 baseos 332 k lua-libs x86_64 5.4.2-4.el9_0.3 baseos 214 k lz4-libs x86_64 1.9.3-5.el9 baseos 69 k mpfr x86_64 4.1.0-7.el9 baseos 329 k ncurses-base noarch 6.2-8.20210508.el9 baseos 100 k ncurses-libs x86_64 6.2-8.20210508.el9 baseos 334 k nettle x86_64 3.8-3.el9_0 baseos 552 k npth x86_64 1.6-8.el9 baseos 27 k openldap x86_64 2.6.2-3.el9 baseos 287 k openldap-compat x86_64 2.6.2-3.el9 baseos 21 k openssl x86_64 1:3.0.1-43.el9_0 baseos 1.2 M openssl-libs x86_64 1:3.0.1-43.el9_0 baseos 2.1 M p11-kit x86_64 0.24.1-2.el9 baseos 387 k p11-kit-trust x86_64 0.24.1-2.el9 baseos 148 k pam x86_64 1.5.1-12.el9 baseos 625 k passwd x86_64 0.80-12.el9 baseos 126 k pcre x86_64 8.44-3.el9.3 baseos 202 k pcre2 x86_64 10.40-2.el9 baseos 239 k pcre2-syntax noarch 10.40-2.el9 baseos 147 k popt x86_64 1.18-8.el9 baseos 69 k publicsuffix-list-dafsa noarch 20210518-3.el9 baseos 59 k python3 x86_64 3.9.14-1.el9_1.1 baseos 31 k python3-chardet noarch 4.0.0-5.el9 baseos 243 k python3-cloud-what x86_64 1.29.30-1.el9 baseos 101 k python3-dateutil noarch 1:2.8.1-6.el9 baseos 306 k python3-dbus x86_64 1.2.18-2.el9 baseos 148 k python3-decorator noarch 4.4.2-6.el9 baseos 31 k python3-dnf noarch 4.12.0-4.el9 baseos 470 k python3-dnf-plugins-core noarch 4.1.0-3.el9 baseos 241 k python3-ethtool x86_64 0.15-2.el9 baseos 45 k python3-gobject-base x86_64 3.40.1-6.el9 baseos 187 k python3-gobject-base-noarch noarch 3.40.1-6.el9 baseos 165 k python3-gpg x86_64 1.15.1-6.el9 baseos 285 k python3-hawkey x86_64 0.67.0-3.el9 baseos 111 k python3-idna noarch 2.10-7.el9 baseos 101 k python3-iniparse noarch 0.4-45.el9 baseos 51 k python3-inotify noarch 0.9.6-25.el9 baseos 56 k python3-libcomps x86_64 0.1.18-1.el9 baseos 52 k python3-libdnf x86_64 0.67.0-3.el9 baseos 788 k python3-librepo x86_64 1.14.2-3.el9 baseos 52 k python3-libs x86_64 3.9.14-1.el9_1.1 baseos 7.8 M python3-pip-wheel noarch 21.2.3-6.el9 baseos 1.1 M python3-pysocks noarch 1.7.1-12.el9 baseos 38 k python3-requests noarch 2.25.1-6.el9 baseos 130 k python3-rpm x86_64 4.16.1.3-19.el9_1 baseos 93 k python3-setuptools noarch 53.0.0-10.el9 baseos 950 k python3-setuptools-wheel noarch 53.0.0-10.el9 baseos 472 k python3-six noarch 1.15.0-9.el9 baseos 40 k python3-subscription-manager-rhsm x86_64 1.29.30-1.el9 baseos 180 k python3-urllib3 noarch 1.26.5-3.el9 baseos 220 k readline x86_64 8.1-4.el9 baseos 215 k redhat-release x86_64 9.1-1.9.el9 baseos 46 k rpm x86_64 4.16.1.3-19.el9_1 baseos 542 k rpm-build-libs x86_64 4.16.1.3-19.el9_1 baseos 92 k rpm-libs x86_64 4.16.1.3-19.el9_1 baseos 309 k rpm-sign-libs x86_64 4.16.1.3-19.el9_1 baseos 23 k sed x86_64 4.8-9.el9 baseos 309 k setup noarch 2.13.7-7.el9 baseos 150 k shadow-utils x86_64 2:4.9-5.el9 baseos 1.2 M sqlite-libs x86_64 3.34.1-5.el9 baseos 623 k subscription-manager-rhsm-certificates noarch 20220623-1.el9 baseos 22 k systemd x86_64 250-12.el9_1 baseos 4.2 M systemd-libs x86_64 250-12.el9_1 baseos 638 k systemd-pam x86_64 250-12.el9_1 baseos 259 k systemd-rpm-macros noarch 250-12.el9_1 baseos 44 k tpm2-tss x86_64 3.0.3-8.el9 baseos 580 k tzdata noarch 2022g-1.el9_1 baseos 839 k usermode x86_64 1.114-4.el9 baseos 194 k util-linux x86_64 2.37.4-9.el9 baseos 2.3 M util-linux-core x86_64 2.37.4-9.el9 baseos 465 k virt-what x86_64 1.25-1.el9 baseos 35 k which x86_64 2.21-28.el9 baseos 45 k xz-libs x86_64 5.2.5-8.el9_0 baseos 94 k zlib x86_64 1.2.11-34.el9 baseos 93 k Transaction Summary ========================================================================================= Install 177 Packages Total download size: 76 M Installed size: 238 M Downloading Packages: (1/177): libseccomp-2.5.2-2.el9.x86_64.rpm 243 kB/s | 74 kB 00:00 (2/177): libpwquality-1.4.4-8.el9.x86_64.rpm 358 kB/s | 123 kB 00:00 (3/177): json-glib-1.6.6-1.el9.x86_64.rpm 423 kB/s | 167 kB 00:00 (4/177): libutempter-1.2.1-6.el9.x86_64.rpm 313 kB/s | 30 kB 00:00 (5/177): libmodulemd-2.13.0-2.el9.x86_64.rpm 1.3 MB/s | 236 kB 00:00 (6/177): python3-ethtool-0.15-2.el9.x86_64.rpm 474 kB/s | 45 kB 00:00 (7/177): python3-iniparse-0.4-45.el9.noarch.rpm 478 kB/s | 51 kB 00:00 (8/177): lz4-libs-1.9.3-5.el9.x86_64.rpm 645 kB/s | 69 kB 00:00 (9/177): libassuan-2.5.5-3.el9.x86_64.rpm 631 kB/s | 71 kB 00:00 (10/177): python3-setuptools-53.0.0-10.el9.noar 5.1 MB/s | 950 kB 00:00 (11/177): libcap-2.48-8.el9.x86_64.rpm 669 kB/s | 76 kB 00:00 (12/177): npth-1.6-8.el9.x86_64.rpm 235 kB/s | 27 kB 00:00 (13/177): cyrus-sasl-lib-2.1.27-20.el9.x86_64.r 6.5 MB/s | 774 kB 00:00 (14/177): python3-urllib3-1.26.5-3.el9.noarch.r 1.6 MB/s | 220 kB 00:00 (15/177): python3-decorator-4.4.2-6.el9.noarch. 89 kB/s | 31 kB 00:00 (16/177): libacl-2.3.1-3.el9.x86_64.rpm 255 kB/s | 26 kB 00:00 (17/177): python3-gpg-1.15.1-6.el9.x86_64.rpm 2.3 MB/s | 285 kB 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-------------------------------------------------------------------------------- Total 10 MB/s | 76 MB 00:07 Red Hat Enterprise Linux - BaseOS 3.5 MB/s | 3.6 kB 00:00 Importing GPG key 0xFD431D51: Userid : "Red Hat, Inc. (release key 2) " Fingerprint: 567E 347A D004 4ADE 55BA 8A5F 199E 2F91 FD43 1D51 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Importing GPG key 0x5A6340B3: Userid : "Red Hat, Inc. (auxiliary key 3) " Fingerprint: 7E46 2425 8C40 6535 D56D 6F13 5054 E4A4 5A63 40B3 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.16-2.el9.x86_64 1/1 Preparing : 1/1 Installing : libgcc-11.3.1-2.1.el9.x86_64 1/177 Running scriptlet: libgcc-11.3.1-2.1.el9.x86_64 1/177 Installing : crypto-policies-20220815-1.git0fbe86f.el9.noarch 2/177 Running scriptlet: crypto-policies-20220815-1.git0fbe86f.el9.noarch 2/177 Installing : tzdata-2022g-1.el9_1.noarch 3/177 Installing : subscription-manager-rhsm-certificates-20220623- 4/177 Installing : coreutils-common-8.32-32.el9.x86_64 5/177 Installing : redhat-release-9.1-1.9.el9.x86_64 6/177 Installing : setup-2.13.7-7.el9.noarch 7/177 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.13.7-7.el9.noarch 7/177 Installing : filesystem-3.16-2.el9.x86_64 8/177 Installing : basesystem-11-13.el9.noarch 9/177 Installing : pcre2-syntax-10.40-2.el9.noarch 10/177 Installing : python3-setuptools-wheel-53.0.0-10.el9.noarch 11/177 Installing : publicsuffix-list-dafsa-20210518-3.el9.noarch 12/177 Installing : ncurses-base-6.2-8.20210508.el9.noarch 13/177 Installing : ncurses-libs-6.2-8.20210508.el9.x86_64 14/177 Running scriptlet: glibc-2.34-40.el9.x86_64 15/177 Installing : glibc-2.34-40.el9.x86_64 15/177 Running scriptlet: glibc-2.34-40.el9.x86_64 15/177 Installing : bash-5.1.8-5.el9.x86_64 16/177 Running scriptlet: bash-5.1.8-5.el9.x86_64 16/177 Installing : glibc-common-2.34-40.el9.x86_64 17/177 Installing : glibc-minimal-langpack-2.34-40.el9.x86_64 18/177 Installing : zlib-1.2.11-34.el9.x86_64 19/177 Installing : xz-libs-5.2.5-8.el9_0.x86_64 20/177 Installing : bzip2-libs-1.0.8-8.el9.x86_64 21/177 Installing : libzstd-1.5.1-2.el9.x86_64 22/177 Installing : libxcrypt-4.4.18-3.el9.x86_64 23/177 Installing : libcap-2.48-8.el9.x86_64 24/177 Installing : sqlite-libs-3.34.1-5.el9.x86_64 25/177 Installing : popt-1.18-8.el9.x86_64 26/177 Installing : libuuid-2.37.4-9.el9.x86_64 27/177 Installing : libgpg-error-1.42-5.el9.x86_64 28/177 Installing : libffi-3.4.2-7.el9.x86_64 29/177 Installing : p11-kit-0.24.1-2.el9.x86_64 30/177 Installing : libxml2-2.9.13-2.el9.x86_64 31/177 Installing : json-c-0.14-11.el9.x86_64 32/177 Installing : readline-8.1-4.el9.x86_64 33/177 Installing : libsmartcols-2.37.4-9.el9.x86_64 34/177 Installing : lua-libs-5.4.2-4.el9_0.3.x86_64 35/177 Installing : libgcrypt-1.10.0-8.el9_0.x86_64 36/177 Installing : file-libs-5.39-10.el9.x86_64 37/177 Installing : elfutils-libelf-0.187-5.el9.x86_64 38/177 Installing : lz4-libs-1.9.3-5.el9.x86_64 39/177 Installing : libcap-ng-0.8.2-7.el9.x86_64 40/177 Installing : audit-libs-3.0.7-103.el9.x86_64 41/177 Installing : libunistring-0.9.10-15.el9.x86_64 42/177 Installing : libidn2-2.3.0-7.el9.x86_64 43/177 Installing : dmidecode-1:3.3-7.el9.x86_64 44/177 Installing : gmp-1:6.2.0-10.el9.x86_64 45/177 Installing : libattr-2.5.1-3.el9.x86_64 46/177 Installing : libacl-2.3.1-3.el9.x86_64 47/177 Installing : libcom_err-1.46.5-3.el9.x86_64 48/177 Installing : expat-2.4.9-1.el9_1.x86_64 49/177 Installing : libstdc++-11.3.1-2.1.el9.x86_64 50/177 Installing : libassuan-2.5.5-3.el9.x86_64 51/177 Installing : libtasn1-4.16.0-7.el9.x86_64 52/177 Installing : pcre-8.44-3.el9.3.x86_64 53/177 Installing : keyutils-libs-1.6.1-4.el9.x86_64 54/177 Installing : libsigsegv-2.13-4.el9.x86_64 55/177 Installing : grep-3.6-5.el9.x86_64 56/177 Installing : gdbm-libs-1:1.19-4.el9.x86_64 57/177 Installing : pcre2-10.40-2.el9.x86_64 58/177 Installing : libsepol-3.4-1.1.el9.x86_64 59/177 Installing : libselinux-3.4-3.el9.x86_64 60/177 Installing : sed-4.8-9.el9.x86_64 61/177 Installing : libsemanage-3.4-2.el9.x86_64 62/177 Installing : shadow-utils-2:4.9-5.el9.x86_64 63/177 Running scriptlet: libutempter-1.2.1-6.el9.x86_64 64/177 Installing : libutempter-1.2.1-6.el9.x86_64 64/177 Installing : libcomps-0.1.18-1.el9.x86_64 65/177 Installing : acl-2.3.1-3.el9.x86_64 66/177 Installing : mpfr-4.1.0-7.el9.x86_64 67/177 Installing : gawk-5.1.0-6.el9.x86_64 68/177 Installing : libpsl-0.21.1-5.el9.x86_64 69/177 Installing : libksba-1.5.1-5.el9_0.x86_64 70/177 Installing : systemd-rpm-macros-250-12.el9_1.noarch 71/177 Installing : libseccomp-2.5.2-2.el9.x86_64 72/177 Installing : npth-1.6-8.el9.x86_64 73/177 Installing : libnghttp2-1.43.0-5.el9.x86_64 74/177 Installing : libbrotli-1.0.9-6.el9.x86_64 75/177 Installing : libverto-0.3.2-3.el9.x86_64 76/177 Installing : libyaml-0.2.5-7.el9.x86_64 77/177 Installing : libdb-5.3.28-53.el9.x86_64 78/177 Installing : libeconf-0.4.1-2.el9.x86_64 79/177 Installing : alternatives-1.20-2.el9.x86_64 80/177 Installing : p11-kit-trust-0.24.1-2.el9.x86_64 81/177 Running scriptlet: p11-kit-trust-0.24.1-2.el9.x86_64 81/177 Installing : openssl-libs-1:3.0.1-43.el9_0.x86_64 82/177 Installing : coreutils-8.32-32.el9.x86_64 83/177 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 84/177 Installing : ca-certificates-2022.2.54-90.2.el9_0.noarch 84/177 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 84/177 Installing : systemd-libs-250-12.el9_1.x86_64 85/177 Running scriptlet: systemd-libs-250-12.el9_1.x86_64 85/177 Installing : libblkid-2.37.4-9.el9.x86_64 86/177 Running scriptlet: libblkid-2.37.4-9.el9.x86_64 86/177 Installing : libmount-2.37.4-9.el9.x86_64 87/177 Installing : krb5-libs-1.19.1-24.el9_1.x86_64 88/177 Installing : cyrus-sasl-lib-2.1.27-20.el9.x86_64 89/177 Installing : util-linux-core-2.37.4-9.el9.x86_64 90/177 Running scriptlet: util-linux-core-2.37.4-9.el9.x86_64 90/177 Installing : libfdisk-2.37.4-9.el9.x86_64 91/177 Installing : dbus-libs-1:1.12.20-6.el9.x86_64 92/177 Installing : python3-pip-wheel-21.2.3-6.el9.noarch 93/177 Installing : python3-3.9.14-1.el9_1.1.x86_64 94/177 Installing : python3-libs-3.9.14-1.el9_1.1.x86_64 95/177 Installing : python3-six-1.15.0-9.el9.noarch 96/177 Installing : python3-dateutil-1:2.8.1-6.el9.noarch 97/177 Installing : python3-iniparse-0.4-45.el9.noarch 98/177 Installing : python3-setuptools-53.0.0-10.el9.noarch 99/177 Installing : python3-idna-2.10-7.el9.noarch 100/177 Installing : python3-inotify-0.9.6-25.el9.noarch 101/177 Installing : python3-libcomps-0.1.18-1.el9.x86_64 102/177 Installing : python3-decorator-4.4.2-6.el9.noarch 103/177 Installing : python3-chardet-4.0.0-5.el9.noarch 104/177 Installing : python3-pysocks-1.7.1-12.el9.noarch 105/177 Installing : python3-urllib3-1.26.5-3.el9.noarch 106/177 Installing : python3-requests-2.25.1-6.el9.noarch 107/177 Installing : python3-cloud-what-1.29.30-1.el9.x86_64 108/177 Installing : openssl-1:3.0.1-43.el9_0.x86_64 109/177 Installing : gzip-1.12-1.el9.x86_64 110/177 Installing : cracklib-2.9.6-27.el9.x86_64 111/177 Installing : cracklib-dicts-2.9.6-27.el9.x86_64 112/177 Installing : pam-1.5.1-12.el9.x86_64 113/177 Installing : libpwquality-1.4.4-8.el9.x86_64 114/177 Installing : util-linux-2.37.4-9.el9.x86_64 115/177 Installing : kmod-libs-28-7.el9.x86_64 116/177 Installing : device-mapper-9:1.02.185-3.el9.x86_64 117/177 Installing : device-mapper-libs-9:1.02.185-3.el9.x86_64 118/177 Installing : cryptsetup-libs-2.4.3-5.el9.x86_64 119/177 Installing : systemd-pam-250-12.el9_1.x86_64 120/177 Installing : dbus-1:1.12.20-6.el9.x86_64 121/177 Running scriptlet: systemd-250-12.el9_1.x86_64 122/177 Installing : systemd-250-12.el9_1.x86_64 122/177 Running scriptlet: systemd-250-12.el9_1.x86_64 122/177 Installing : dbus-common-1:1.12.20-6.el9.noarch 123/177 Running scriptlet: dbus-common-1:1.12.20-6.el9.noarch 123/177 Created symlink /etc/systemd/system/sockets.target.wants/dbus.socket → /usr/lib/systemd/system/dbus.socket. Created symlink /etc/systemd/user/sockets.target.wants/dbus.socket → /usr/lib/systemd/user/dbus.socket. Running scriptlet: dbus-broker-28-7.el9.x86_64 124/177 Installing : dbus-broker-28-7.el9.x86_64 124/177 Running scriptlet: dbus-broker-28-7.el9.x86_64 124/177 Created symlink /etc/systemd/system/dbus.service → /usr/lib/systemd/system/dbus-broker.service. Created symlink /etc/systemd/user/dbus.service → /usr/lib/systemd/user/dbus-broker.service. Installing : elfutils-default-yama-scope-0.187-5.el9.noarch 125/177 Running scriptlet: elfutils-default-yama-scope-0.187-5.el9.noarch 125/177 Installing : elfutils-libs-0.187-5.el9.x86_64 126/177 Installing : libevent-2.1.12-6.el9.x86_64 127/177 Installing : openldap-2.6.2-3.el9.x86_64 128/177 Installing : openldap-compat-2.6.2-3.el9.x86_64 129/177 Installing : libarchive-3.5.3-3.el9.x86_64 130/177 Installing : nettle-3.8-3.el9_0.x86_64 131/177 Installing : gnutls-3.7.6-12.el9_0.x86_64 132/177 Installing : glib2-2.68.4-5.el9.x86_64 133/177 Installing : python3-dbus-1.2.18-2.el9.x86_64 134/177 Installing : libuser-0.63-11.el9.x86_64 135/177 Installing : gnupg2-2.3.3-2.el9_0.x86_64 136/177 Installing : gpgme-1.15.1-6.el9.x86_64 137/177 Installing : python3-gpg-1.15.1-6.el9.x86_64 138/177 Installing : passwd-0.80-12.el9.x86_64 139/177 Installing : usermode-1.114-4.el9.x86_64 140/177 Installing : json-glib-1.6.6-1.el9.x86_64 141/177 Installing : librhsm-0.0.3-7.el9.x86_64 142/177 Installing : gobject-introspection-1.68.0-10.el9.x86_64 143/177 Installing : python3-gobject-base-noarch-3.40.1-6.el9.noarch 144/177 Installing : python3-gobject-base-3.40.1-6.el9.x86_64 145/177 Installing : which-2.21-28.el9.x86_64 146/177 Installing : virt-what-1.25-1.el9.x86_64 147/177 Installing : libgomp-11.3.1-2.1.el9.x86_64 148/177 Installing : libnl3-3.7.0-1.el9.x86_64 149/177 Installing : python3-ethtool-0.15-2.el9.x86_64 150/177 Installing : libssh-config-0.9.6-3.el9.noarch 151/177 Installing : libssh-0.9.6-3.el9.x86_64 152/177 Installing : libcurl-7.76.1-19.el9.x86_64 153/177 Installing : librepo-1.14.2-3.el9.x86_64 154/177 Installing : python3-librepo-1.14.2-3.el9.x86_64 155/177 Installing : curl-7.76.1-19.el9.x86_64 156/177 Installing : rpm-libs-4.16.1.3-19.el9_1.x86_64 157/177 Installing : rpm-4.16.1.3-19.el9_1.x86_64 158/177 Installing : libmodulemd-2.13.0-2.el9.x86_64 159/177 Installing : libsolv-0.7.22-1.el9.x86_64 160/177 Installing : libdnf-0.67.0-3.el9.x86_64 161/177 Installing : python3-libdnf-0.67.0-3.el9.x86_64 162/177 Installing : python3-hawkey-0.67.0-3.el9.x86_64 163/177 Installing : rpm-build-libs-4.16.1.3-19.el9_1.x86_64 164/177 Running scriptlet: tpm2-tss-3.0.3-8.el9.x86_64 165/177 Installing : tpm2-tss-3.0.3-8.el9.x86_64 165/177 Installing : ima-evm-utils-1.4-4.el9.x86_64 166/177 Installing : rpm-sign-libs-4.16.1.3-19.el9_1.x86_64 167/177 Installing : python3-rpm-4.16.1.3-19.el9_1.x86_64 168/177 Installing : python3-subscription-manager-rhsm-1.29.30-1.el9. 169/177 Installing : libreport-filesystem-2.15.2-6.el9.noarch 170/177 Installing : dnf-data-4.12.0-4.el9.noarch 171/177 warning: /etc/dnf/dnf.conf created as /etc/dnf/dnf.conf.rpmnew Installing : python3-dnf-4.12.0-4.el9.noarch 172/177 Installing : python3-dnf-plugins-core-4.1.0-3.el9.noarch 173/177 Installing : dnf-4.12.0-4.el9.noarch 174/177 Running scriptlet: dnf-4.12.0-4.el9.noarch 174/177 Created symlink /etc/systemd/system/timers.target.wants/dnf-makecache.timer → /usr/lib/systemd/system/dnf-makecache.timer. Installing : libdnf-plugin-subscription-manager-1.29.30-1.el9 175/177 Running scriptlet: subscription-manager-1.29.30-1.el9.x86_64 176/177 Installing : subscription-manager-1.29.30-1.el9.x86_64 176/177 Running scriptlet: subscription-manager-1.29.30-1.el9.x86_64 176/177 Created symlink /etc/systemd/system/multi-user.target.wants/rhsmcertd.service → /usr/lib/systemd/system/rhsmcertd.service. /var/tmp/rpm-tmp.mkobiO: line 17: find: command not found /var/tmp/rpm-tmp.mkobiO: line 17: xargs: command not found Installing : dnf-plugins-core-4.1.0-3.el9.noarch 177/177 Running scriptlet: filesystem-3.16-2.el9.x86_64 177/177 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 177/177 Running scriptlet: rpm-4.16.1.3-19.el9_1.x86_64 177/177 Running scriptlet: subscription-manager-1.29.30-1.el9.x86_64 177/177 Running scriptlet: dnf-plugins-core-4.1.0-3.el9.noarch 177/177 Verifying : json-glib-1.6.6-1.el9.x86_64 1/177 Verifying : libseccomp-2.5.2-2.el9.x86_64 2/177 Verifying : libpwquality-1.4.4-8.el9.x86_64 3/177 Verifying : libmodulemd-2.13.0-2.el9.x86_64 4/177 Verifying : libutempter-1.2.1-6.el9.x86_64 5/177 Verifying : python3-ethtool-0.15-2.el9.x86_64 6/177 Verifying : python3-iniparse-0.4-45.el9.noarch 7/177 Verifying : python3-setuptools-53.0.0-10.el9.noarch 8/177 Verifying : lz4-libs-1.9.3-5.el9.x86_64 9/177 Verifying : libassuan-2.5.5-3.el9.x86_64 10/177 Verifying : python3-decorator-4.4.2-6.el9.noarch 11/177 Verifying : libcap-2.48-8.el9.x86_64 12/177 Verifying : npth-1.6-8.el9.x86_64 13/177 Verifying : python3-urllib3-1.26.5-3.el9.noarch 14/177 Verifying : cyrus-sasl-lib-2.1.27-20.el9.x86_64 15/177 Verifying : libacl-2.3.1-3.el9.x86_64 16/177 Verifying : python3-gpg-1.15.1-6.el9.x86_64 17/177 Verifying : libcap-ng-0.8.2-7.el9.x86_64 18/177 Verifying : python3-inotify-0.9.6-25.el9.noarch 19/177 Verifying : libnghttp2-1.43.0-5.el9.x86_64 20/177 Verifying : json-c-0.14-11.el9.x86_64 21/177 Verifying : filesystem-3.16-2.el9.x86_64 22/177 Verifying : kmod-libs-28-7.el9.x86_64 23/177 Verifying : python3-dbus-1.2.18-2.el9.x86_64 24/177 Verifying : gobject-introspection-1.68.0-10.el9.x86_64 25/177 Verifying : libtasn1-4.16.0-7.el9.x86_64 26/177 Verifying : pcre-8.44-3.el9.3.x86_64 27/177 Verifying : libssh-0.9.6-3.el9.x86_64 28/177 Verifying : python3-idna-2.10-7.el9.noarch 29/177 Verifying : libreport-filesystem-2.15.2-6.el9.noarch 30/177 Verifying : sed-4.8-9.el9.x86_64 31/177 Verifying : ncurses-libs-6.2-8.20210508.el9.x86_64 32/177 Verifying : libcomps-0.1.18-1.el9.x86_64 33/177 Verifying : python3-libcomps-0.1.18-1.el9.x86_64 34/177 Verifying : grep-3.6-5.el9.x86_64 35/177 Verifying : libunistring-0.9.10-15.el9.x86_64 36/177 Verifying : basesystem-11-13.el9.noarch 37/177 Verifying : libssh-config-0.9.6-3.el9.noarch 38/177 Verifying : usermode-1.114-4.el9.x86_64 39/177 Verifying : libbrotli-1.0.9-6.el9.x86_64 40/177 Verifying : libverto-0.3.2-3.el9.x86_64 41/177 Verifying : ncurses-base-6.2-8.20210508.el9.noarch 42/177 Verifying : libxcrypt-4.4.18-3.el9.x86_64 43/177 Verifying : keyutils-libs-1.6.1-4.el9.x86_64 44/177 Verifying : libyaml-0.2.5-7.el9.x86_64 45/177 Verifying : acl-2.3.1-3.el9.x86_64 46/177 Verifying : mpfr-4.1.0-7.el9.x86_64 47/177 Verifying : popt-1.18-8.el9.x86_64 48/177 Verifying : readline-8.1-4.el9.x86_64 49/177 Verifying : cracklib-2.9.6-27.el9.x86_64 50/177 Verifying : libidn2-2.3.0-7.el9.x86_64 51/177 Verifying : gpgme-1.15.1-6.el9.x86_64 52/177 Verifying : passwd-0.80-12.el9.x86_64 53/177 Verifying : libevent-2.1.12-6.el9.x86_64 54/177 Verifying : python3-requests-2.25.1-6.el9.noarch 55/177 Verifying : sqlite-libs-3.34.1-5.el9.x86_64 56/177 Verifying : libgpg-error-1.42-5.el9.x86_64 57/177 Verifying : libffi-3.4.2-7.el9.x86_64 58/177 Verifying : libzstd-1.5.1-2.el9.x86_64 59/177 Verifying : p11-kit-0.24.1-2.el9.x86_64 60/177 Verifying : libpsl-0.21.1-5.el9.x86_64 61/177 Verifying : python3-chardet-4.0.0-5.el9.noarch 62/177 Verifying : glib2-2.68.4-5.el9.x86_64 63/177 Verifying : python3-pysocks-1.7.1-12.el9.noarch 64/177 Verifying : librhsm-0.0.3-7.el9.x86_64 65/177 Verifying : publicsuffix-list-dafsa-20210518-3.el9.noarch 66/177 Verifying : libdb-5.3.28-53.el9.x86_64 67/177 Verifying : dmidecode-1:3.3-7.el9.x86_64 68/177 Verifying : gmp-1:6.2.0-10.el9.x86_64 69/177 Verifying : libeconf-0.4.1-2.el9.x86_64 70/177 Verifying : libsigsegv-2.13-4.el9.x86_64 71/177 Verifying : alternatives-1.20-2.el9.x86_64 72/177 Verifying : libattr-2.5.1-3.el9.x86_64 73/177 Verifying : ima-evm-utils-1.4-4.el9.x86_64 74/177 Verifying : python3-setuptools-wheel-53.0.0-10.el9.noarch 75/177 Verifying : bzip2-libs-1.0.8-8.el9.x86_64 76/177 Verifying : python3-pip-wheel-21.2.3-6.el9.noarch 77/177 Verifying : coreutils-8.32-32.el9.x86_64 78/177 Verifying : gdbm-libs-1:1.19-4.el9.x86_64 79/177 Verifying : libsmartcols-2.37.4-9.el9.x86_64 80/177 Verifying : ca-certificates-2022.2.54-90.2.el9_0.noarch 81/177 Verifying : libgcrypt-1.10.0-8.el9_0.x86_64 82/177 Verifying : nettle-3.8-3.el9_0.x86_64 83/177 Verifying : gnutls-3.7.6-12.el9_0.x86_64 84/177 Verifying : libgcc-11.3.1-2.1.el9.x86_64 85/177 Verifying : dnf-data-4.12.0-4.el9.noarch 86/177 Verifying : cracklib-dicts-2.9.6-27.el9.x86_64 87/177 Verifying : python3-dnf-4.12.0-4.el9.noarch 88/177 Verifying : shadow-utils-2:4.9-5.el9.x86_64 89/177 Verifying : glibc-2.34-40.el9.x86_64 90/177 Verifying : zlib-1.2.11-34.el9.x86_64 91/177 Verifying : lua-libs-5.4.2-4.el9_0.3.x86_64 92/177 Verifying : xz-libs-5.2.5-8.el9_0.x86_64 93/177 Verifying : curl-7.76.1-19.el9.x86_64 94/177 Verifying : dnf-plugins-core-4.1.0-3.el9.noarch 95/177 Verifying : which-2.21-28.el9.x86_64 96/177 Verifying : bash-5.1.8-5.el9.x86_64 97/177 Verifying : p11-kit-trust-0.24.1-2.el9.x86_64 98/177 Verifying : pcre2-syntax-10.40-2.el9.noarch 99/177 Verifying : libfdisk-2.37.4-9.el9.x86_64 100/177 Verifying : util-linux-core-2.37.4-9.el9.x86_64 101/177 Verifying : libuser-0.63-11.el9.x86_64 102/177 Verifying : libgomp-11.3.1-2.1.el9.x86_64 103/177 Verifying : openssl-1:3.0.1-43.el9_0.x86_64 104/177 Verifying : python3-six-1.15.0-9.el9.noarch 105/177 Verifying : pam-1.5.1-12.el9.x86_64 106/177 Verifying : libksba-1.5.1-5.el9_0.x86_64 107/177 Verifying : libxml2-2.9.13-2.el9.x86_64 108/177 Verifying : python3-dnf-plugins-core-4.1.0-3.el9.noarch 109/177 Verifying : libsolv-0.7.22-1.el9.x86_64 110/177 Verifying : openssl-libs-1:3.0.1-43.el9_0.x86_64 111/177 Verifying : gawk-5.1.0-6.el9.x86_64 112/177 Verifying : libdnf-plugin-subscription-manager-1.29.30-1.el9 113/177 Verifying : gnupg2-2.3.3-2.el9_0.x86_64 114/177 Verifying : libnl3-3.7.0-1.el9.x86_64 115/177 Verifying : setup-2.13.7-7.el9.noarch 116/177 Verifying : python3-dateutil-1:2.8.1-6.el9.noarch 117/177 Verifying : subscription-manager-rhsm-certificates-20220623- 118/177 Verifying : libcom_err-1.46.5-3.el9.x86_64 119/177 Verifying : libselinux-3.4-3.el9.x86_64 120/177 Verifying : dbus-libs-1:1.12.20-6.el9.x86_64 121/177 Verifying : dnf-4.12.0-4.el9.noarch 122/177 Verifying : glibc-common-2.34-40.el9.x86_64 123/177 Verifying : systemd-250-12.el9_1.x86_64 124/177 Verifying : subscription-manager-1.29.30-1.el9.x86_64 125/177 Verifying : pcre2-10.40-2.el9.x86_64 126/177 Verifying : glibc-minimal-langpack-2.34-40.el9.x86_64 127/177 Verifying : python3-gobject-base-noarch-3.40.1-6.el9.noarch 128/177 Verifying : python3-libdnf-0.67.0-3.el9.x86_64 129/177 Verifying : device-mapper-libs-9:1.02.185-3.el9.x86_64 130/177 Verifying : libmount-2.37.4-9.el9.x86_64 131/177 Verifying : libuuid-2.37.4-9.el9.x86_64 132/177 Verifying : redhat-release-9.1-1.9.el9.x86_64 133/177 Verifying : file-libs-5.39-10.el9.x86_64 134/177 Verifying : openldap-2.6.2-3.el9.x86_64 135/177 Verifying : librepo-1.14.2-3.el9.x86_64 136/177 Verifying : audit-libs-3.0.7-103.el9.x86_64 137/177 Verifying : systemd-rpm-macros-250-12.el9_1.noarch 138/177 Verifying : python3-hawkey-0.67.0-3.el9.x86_64 139/177 Verifying : python3-librepo-1.14.2-3.el9.x86_64 140/177 Verifying : libsemanage-3.4-2.el9.x86_64 141/177 Verifying : util-linux-2.37.4-9.el9.x86_64 142/177 Verifying : python3-subscription-manager-rhsm-1.29.30-1.el9. 143/177 Verifying : expat-2.4.9-1.el9_1.x86_64 144/177 Verifying : virt-what-1.25-1.el9.x86_64 145/177 Verifying : systemd-libs-250-12.el9_1.x86_64 146/177 Verifying : elfutils-default-yama-scope-0.187-5.el9.noarch 147/177 Verifying : libcurl-7.76.1-19.el9.x86_64 148/177 Verifying : libarchive-3.5.3-3.el9.x86_64 149/177 Verifying : elfutils-libelf-0.187-5.el9.x86_64 150/177 Verifying : crypto-policies-20220815-1.git0fbe86f.el9.noarch 151/177 Verifying : libblkid-2.37.4-9.el9.x86_64 152/177 Verifying : dbus-1:1.12.20-6.el9.x86_64 153/177 Verifying : libsepol-3.4-1.1.el9.x86_64 154/177 Verifying : gzip-1.12-1.el9.x86_64 155/177 Verifying : openldap-compat-2.6.2-3.el9.x86_64 156/177 Verifying : elfutils-libs-0.187-5.el9.x86_64 157/177 Verifying : dbus-common-1:1.12.20-6.el9.noarch 158/177 Verifying : python3-cloud-what-1.29.30-1.el9.x86_64 159/177 Verifying : python3-gobject-base-3.40.1-6.el9.x86_64 160/177 Verifying : systemd-pam-250-12.el9_1.x86_64 161/177 Verifying : cryptsetup-libs-2.4.3-5.el9.x86_64 162/177 Verifying : libstdc++-11.3.1-2.1.el9.x86_64 163/177 Verifying : coreutils-common-8.32-32.el9.x86_64 164/177 Verifying : device-mapper-9:1.02.185-3.el9.x86_64 165/177 Verifying : tpm2-tss-3.0.3-8.el9.x86_64 166/177 Verifying : dbus-broker-28-7.el9.x86_64 167/177 Verifying : libdnf-0.67.0-3.el9.x86_64 168/177 Verifying : python3-rpm-4.16.1.3-19.el9_1.x86_64 169/177 Verifying : rpm-build-libs-4.16.1.3-19.el9_1.x86_64 170/177 Verifying : rpm-sign-libs-4.16.1.3-19.el9_1.x86_64 171/177 Verifying : rpm-libs-4.16.1.3-19.el9_1.x86_64 172/177 Verifying : rpm-4.16.1.3-19.el9_1.x86_64 173/177 Verifying : python3-3.9.14-1.el9_1.1.x86_64 174/177 Verifying : python3-libs-3.9.14-1.el9_1.1.x86_64 175/177 Verifying : krb5-libs-1.19.1-24.el9_1.x86_64 176/177 Verifying : tzdata-2022g-1.el9_1.noarch 177/177 Installed products updated. Installed: acl-2.3.1-3.el9.x86_64 alternatives-1.20-2.el9.x86_64 audit-libs-3.0.7-103.el9.x86_64 basesystem-11-13.el9.noarch bash-5.1.8-5.el9.x86_64 bzip2-libs-1.0.8-8.el9.x86_64 ca-certificates-2022.2.54-90.2.el9_0.noarch coreutils-8.32-32.el9.x86_64 coreutils-common-8.32-32.el9.x86_64 cracklib-2.9.6-27.el9.x86_64 cracklib-dicts-2.9.6-27.el9.x86_64 crypto-policies-20220815-1.git0fbe86f.el9.noarch cryptsetup-libs-2.4.3-5.el9.x86_64 curl-7.76.1-19.el9.x86_64 cyrus-sasl-lib-2.1.27-20.el9.x86_64 dbus-1:1.12.20-6.el9.x86_64 dbus-broker-28-7.el9.x86_64 dbus-common-1:1.12.20-6.el9.noarch dbus-libs-1:1.12.20-6.el9.x86_64 device-mapper-9:1.02.185-3.el9.x86_64 device-mapper-libs-9:1.02.185-3.el9.x86_64 dmidecode-1:3.3-7.el9.x86_64 dnf-4.12.0-4.el9.noarch dnf-data-4.12.0-4.el9.noarch dnf-plugins-core-4.1.0-3.el9.noarch elfutils-default-yama-scope-0.187-5.el9.noarch elfutils-libelf-0.187-5.el9.x86_64 elfutils-libs-0.187-5.el9.x86_64 expat-2.4.9-1.el9_1.x86_64 file-libs-5.39-10.el9.x86_64 filesystem-3.16-2.el9.x86_64 gawk-5.1.0-6.el9.x86_64 gdbm-libs-1:1.19-4.el9.x86_64 glib2-2.68.4-5.el9.x86_64 glibc-2.34-40.el9.x86_64 glibc-common-2.34-40.el9.x86_64 glibc-minimal-langpack-2.34-40.el9.x86_64 gmp-1:6.2.0-10.el9.x86_64 gnupg2-2.3.3-2.el9_0.x86_64 gnutls-3.7.6-12.el9_0.x86_64 gobject-introspection-1.68.0-10.el9.x86_64 gpgme-1.15.1-6.el9.x86_64 grep-3.6-5.el9.x86_64 gzip-1.12-1.el9.x86_64 ima-evm-utils-1.4-4.el9.x86_64 json-c-0.14-11.el9.x86_64 json-glib-1.6.6-1.el9.x86_64 keyutils-libs-1.6.1-4.el9.x86_64 kmod-libs-28-7.el9.x86_64 krb5-libs-1.19.1-24.el9_1.x86_64 libacl-2.3.1-3.el9.x86_64 libarchive-3.5.3-3.el9.x86_64 libassuan-2.5.5-3.el9.x86_64 libattr-2.5.1-3.el9.x86_64 libblkid-2.37.4-9.el9.x86_64 libbrotli-1.0.9-6.el9.x86_64 libcap-2.48-8.el9.x86_64 libcap-ng-0.8.2-7.el9.x86_64 libcom_err-1.46.5-3.el9.x86_64 libcomps-0.1.18-1.el9.x86_64 libcurl-7.76.1-19.el9.x86_64 libdb-5.3.28-53.el9.x86_64 libdnf-0.67.0-3.el9.x86_64 libdnf-plugin-subscription-manager-1.29.30-1.el9.x86_64 libeconf-0.4.1-2.el9.x86_64 libevent-2.1.12-6.el9.x86_64 libfdisk-2.37.4-9.el9.x86_64 libffi-3.4.2-7.el9.x86_64 libgcc-11.3.1-2.1.el9.x86_64 libgcrypt-1.10.0-8.el9_0.x86_64 libgomp-11.3.1-2.1.el9.x86_64 libgpg-error-1.42-5.el9.x86_64 libidn2-2.3.0-7.el9.x86_64 libksba-1.5.1-5.el9_0.x86_64 libmodulemd-2.13.0-2.el9.x86_64 libmount-2.37.4-9.el9.x86_64 libnghttp2-1.43.0-5.el9.x86_64 libnl3-3.7.0-1.el9.x86_64 libpsl-0.21.1-5.el9.x86_64 libpwquality-1.4.4-8.el9.x86_64 librepo-1.14.2-3.el9.x86_64 libreport-filesystem-2.15.2-6.el9.noarch librhsm-0.0.3-7.el9.x86_64 libseccomp-2.5.2-2.el9.x86_64 libselinux-3.4-3.el9.x86_64 libsemanage-3.4-2.el9.x86_64 libsepol-3.4-1.1.el9.x86_64 libsigsegv-2.13-4.el9.x86_64 libsmartcols-2.37.4-9.el9.x86_64 libsolv-0.7.22-1.el9.x86_64 libssh-0.9.6-3.el9.x86_64 libssh-config-0.9.6-3.el9.noarch libstdc++-11.3.1-2.1.el9.x86_64 libtasn1-4.16.0-7.el9.x86_64 libunistring-0.9.10-15.el9.x86_64 libuser-0.63-11.el9.x86_64 libutempter-1.2.1-6.el9.x86_64 libuuid-2.37.4-9.el9.x86_64 libverto-0.3.2-3.el9.x86_64 libxcrypt-4.4.18-3.el9.x86_64 libxml2-2.9.13-2.el9.x86_64 libyaml-0.2.5-7.el9.x86_64 libzstd-1.5.1-2.el9.x86_64 lua-libs-5.4.2-4.el9_0.3.x86_64 lz4-libs-1.9.3-5.el9.x86_64 mpfr-4.1.0-7.el9.x86_64 ncurses-base-6.2-8.20210508.el9.noarch ncurses-libs-6.2-8.20210508.el9.x86_64 nettle-3.8-3.el9_0.x86_64 npth-1.6-8.el9.x86_64 openldap-2.6.2-3.el9.x86_64 openldap-compat-2.6.2-3.el9.x86_64 openssl-1:3.0.1-43.el9_0.x86_64 openssl-libs-1:3.0.1-43.el9_0.x86_64 p11-kit-0.24.1-2.el9.x86_64 p11-kit-trust-0.24.1-2.el9.x86_64 pam-1.5.1-12.el9.x86_64 passwd-0.80-12.el9.x86_64 pcre-8.44-3.el9.3.x86_64 pcre2-10.40-2.el9.x86_64 pcre2-syntax-10.40-2.el9.noarch popt-1.18-8.el9.x86_64 publicsuffix-list-dafsa-20210518-3.el9.noarch python3-3.9.14-1.el9_1.1.x86_64 python3-chardet-4.0.0-5.el9.noarch python3-cloud-what-1.29.30-1.el9.x86_64 python3-dateutil-1:2.8.1-6.el9.noarch python3-dbus-1.2.18-2.el9.x86_64 python3-decorator-4.4.2-6.el9.noarch python3-dnf-4.12.0-4.el9.noarch python3-dnf-plugins-core-4.1.0-3.el9.noarch python3-ethtool-0.15-2.el9.x86_64 python3-gobject-base-3.40.1-6.el9.x86_64 python3-gobject-base-noarch-3.40.1-6.el9.noarch python3-gpg-1.15.1-6.el9.x86_64 python3-hawkey-0.67.0-3.el9.x86_64 python3-idna-2.10-7.el9.noarch python3-iniparse-0.4-45.el9.noarch python3-inotify-0.9.6-25.el9.noarch python3-libcomps-0.1.18-1.el9.x86_64 python3-libdnf-0.67.0-3.el9.x86_64 python3-librepo-1.14.2-3.el9.x86_64 python3-libs-3.9.14-1.el9_1.1.x86_64 python3-pip-wheel-21.2.3-6.el9.noarch python3-pysocks-1.7.1-12.el9.noarch python3-requests-2.25.1-6.el9.noarch python3-rpm-4.16.1.3-19.el9_1.x86_64 python3-setuptools-53.0.0-10.el9.noarch python3-setuptools-wheel-53.0.0-10.el9.noarch python3-six-1.15.0-9.el9.noarch python3-subscription-manager-rhsm-1.29.30-1.el9.x86_64 python3-urllib3-1.26.5-3.el9.noarch readline-8.1-4.el9.x86_64 redhat-release-9.1-1.9.el9.x86_64 rpm-4.16.1.3-19.el9_1.x86_64 rpm-build-libs-4.16.1.3-19.el9_1.x86_64 rpm-libs-4.16.1.3-19.el9_1.x86_64 rpm-sign-libs-4.16.1.3-19.el9_1.x86_64 sed-4.8-9.el9.x86_64 setup-2.13.7-7.el9.noarch shadow-utils-2:4.9-5.el9.x86_64 sqlite-libs-3.34.1-5.el9.x86_64 subscription-manager-1.29.30-1.el9.x86_64 subscription-manager-rhsm-certificates-20220623-1.el9.noarch systemd-250-12.el9_1.x86_64 systemd-libs-250-12.el9_1.x86_64 systemd-pam-250-12.el9_1.x86_64 systemd-rpm-macros-250-12.el9_1.noarch tpm2-tss-3.0.3-8.el9.x86_64 tzdata-2022g-1.el9_1.noarch usermode-1.114-4.el9.x86_64 util-linux-2.37.4-9.el9.x86_64 util-linux-core-2.37.4-9.el9.x86_64 virt-what-1.25-1.el9.x86_64 which-2.21-28.el9.x86_64 xz-libs-5.2.5-8.el9_0.x86_64 zlib-1.2.11-34.el9.x86_64 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/rhel+epel-9-x86_64-1674273919.724043/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 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 1.9 MB/s | 592 kB 00:00 Additional repo copr_aminasyan_el9_collection 1.9 MB/s | 592 kB 00:00 Additional repo http_mirror_stream_centos_org_S 2.1 MB/s | 856 kB 00:00 Red Hat Enterprise Linux - BaseOS 6.9 MB/s | 6.9 MB 00:00 Red Hat Enterprise Linux - AppStream 16 MB/s | 15 MB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 4.3 MB/s | 4.3 MB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 5.4 MB/s | 13 MB 00:02 Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing: bash x86_64 5.1.8-5.el9 baseos 1.7 M bzip2 x86_64 1.0.8-8.el9 baseos 60 k coreutils x86_64 8.32-32.el9 baseos 1.2 M cpio x86_64 2.13-16.el9 baseos 279 k diffutils x86_64 3.7-12.el9 baseos 402 k epel-rpm-macros noarch 9-7.el9 epel 16 k findutils x86_64 1:4.8.0-5.el9 baseos 552 k gawk x86_64 5.1.0-6.el9 baseos 1.0 M glibc-minimal-langpack x86_64 2.34-40.el9 baseos 29 k grep x86_64 3.6-5.el9 baseos 273 k gzip x86_64 1.12-1.el9 baseos 167 k info x86_64 6.7-15.el9 baseos 228 k patch x86_64 2.7.6-16.el9 appstream 130 k redhat-release x86_64 9.1-1.9.el9 baseos 46 k redhat-rpm-config noarch 196-1.el9 appstream 77 k rpm-build x86_64 4.16.1.3-19.el9_1 appstream 106 k sed x86_64 4.8-9.el9 baseos 309 k shadow-utils x86_64 2:4.9-5.el9 baseos 1.2 M tar x86_64 2:1.34-5.el9 baseos 890 k unzip x86_64 6.0-56.el9 baseos 186 k util-linux x86_64 2.37.4-9.el9 baseos 2.3 M which x86_64 2.21-28.el9 baseos 45 k xz x86_64 5.2.5-8.el9_0 baseos 230 k Installing dependencies: alternatives x86_64 1.20-2.el9 baseos 40 k ansible-srpm-macros noarch 1-8.1.el9 epel 8.5 k audit-libs x86_64 3.0.7-103.el9 baseos 121 k basesystem noarch 11-13.el9 baseos 8.0 k binutils x86_64 2.35.2-24.el9 baseos 4.6 M binutils-gold x86_64 2.35.2-24.el9 baseos 738 k bzip2-libs x86_64 1.0.8-8.el9 baseos 42 k ca-certificates noarch 2022.2.54-90.2.el9_0 baseos 835 k coreutils-common x86_64 8.32-32.el9 baseos 2.0 M cracklib x86_64 2.9.6-27.el9 baseos 99 k cracklib-dicts x86_64 2.9.6-27.el9 baseos 3.6 M crypto-policies noarch 20220815-1.git0fbe86f.el9 baseos 85 k curl x86_64 7.76.1-19.el9 baseos 300 k cyrus-sasl-lib x86_64 2.1.27-20.el9 baseos 774 k dwz x86_64 0.14-3.el9 appstream 130 k ed x86_64 1.14.2-12.el9 baseos 78 k efi-srpm-macros noarch 6-2.el9_0 appstream 24 k elfutils x86_64 0.187-5.el9 baseos 533 k elfutils-debuginfod-client x86_64 0.187-5.el9 baseos 41 k elfutils-default-yama-scope noarch 0.187-5.el9 baseos 16 k elfutils-libelf x86_64 0.187-5.el9 baseos 199 k elfutils-libs x86_64 0.187-5.el9 baseos 257 k file x86_64 5.39-10.el9 baseos 52 k file-libs x86_64 5.39-10.el9 baseos 592 k filesystem x86_64 3.16-2.el9 baseos 4.7 M fonts-srpm-macros noarch 1:2.0.5-7.el9.1 appstream 29 k gdb-minimal x86_64 10.2-10.el9 appstream 3.5 M gdbm-libs x86_64 1:1.19-4.el9 baseos 56 k ghc-srpm-macros noarch 1.5.0-6.el9 appstream 9.0 k glibc x86_64 2.34-40.el9 baseos 1.9 M glibc-common x86_64 2.34-40.el9 baseos 313 k glibc-gconv-extra x86_64 2.34-40.el9 baseos 1.7 M gmp x86_64 1:6.2.0-10.el9 baseos 320 k go-srpm-macros noarch 3.0.9-9.el9 appstream 28 k go-srpm-macros-epel noarch 1-8.el9 epel 22 k groff-base x86_64 1.22.4-10.el9 baseos 1.1 M kernel-srpm-macros noarch 1.0-11.el9 appstream 17 k keyutils-libs x86_64 1.6.1-4.el9 baseos 34 k krb5-libs x86_64 1.19.1-24.el9_1 baseos 733 k libacl x86_64 2.3.1-3.el9 baseos 26 k libarchive x86_64 3.5.3-3.el9 baseos 392 k libattr x86_64 2.5.1-3.el9 baseos 20 k libblkid x86_64 2.37.4-9.el9 baseos 110 k libbrotli x86_64 1.0.9-6.el9 baseos 317 k libcap x86_64 2.48-8.el9 baseos 76 k libcap-ng x86_64 0.8.2-7.el9 baseos 36 k libcom_err x86_64 1.46.5-3.el9 baseos 29 k libcurl x86_64 7.76.1-19.el9 baseos 289 k libdb x86_64 5.3.28-53.el9 baseos 740 k libeconf x86_64 0.4.1-2.el9 baseos 31 k libevent x86_64 2.1.12-6.el9 baseos 268 k libfdisk x86_64 2.37.4-9.el9 baseos 156 k libffi x86_64 3.4.2-7.el9 baseos 40 k libgcc x86_64 11.3.1-2.1.el9 baseos 119 k libgcrypt x86_64 1.10.0-8.el9_0 baseos 513 k libgomp x86_64 11.3.1-2.1.el9 baseos 294 k libgpg-error x86_64 1.42-5.el9 baseos 220 k libidn2 x86_64 2.3.0-7.el9 baseos 105 k libmount x86_64 2.37.4-9.el9 baseos 136 k libnghttp2 x86_64 1.43.0-5.el9 baseos 76 k libpkgconf x86_64 1.7.3-9.el9 baseos 38 k libpsl x86_64 0.21.1-5.el9 baseos 66 k libpwquality x86_64 1.4.4-8.el9 baseos 123 k libselinux x86_64 3.4-3.el9 baseos 88 k libsemanage x86_64 3.4-2.el9 baseos 121 k libsepol x86_64 3.4-1.1.el9 baseos 317 k libsigsegv x86_64 2.13-4.el9 baseos 30 k libsmartcols x86_64 2.37.4-9.el9 baseos 66 k libssh x86_64 0.9.6-3.el9 baseos 210 k libssh-config noarch 0.9.6-3.el9 baseos 11 k libstdc++ x86_64 11.3.1-2.1.el9 baseos 766 k libtasn1 x86_64 4.16.0-7.el9 baseos 78 k libunistring x86_64 0.9.10-15.el9 baseos 499 k libutempter x86_64 1.2.1-6.el9 baseos 30 k libuuid x86_64 2.37.4-9.el9 baseos 30 k libverto x86_64 0.3.2-3.el9 baseos 24 k libxcrypt x86_64 4.4.18-3.el9 baseos 120 k libxml2 x86_64 2.9.13-2.el9 baseos 752 k libzstd x86_64 1.5.1-2.el9 baseos 332 k lua-libs x86_64 5.4.2-4.el9_0.3 baseos 214 k lua-srpm-macros noarch 1-6.el9 appstream 10 k lz4-libs x86_64 1.9.3-5.el9 baseos 69 k mpfr x86_64 4.1.0-7.el9 baseos 329 k ncurses x86_64 6.2-8.20210508.el9 baseos 412 k ncurses-base noarch 6.2-8.20210508.el9 baseos 100 k ncurses-libs x86_64 6.2-8.20210508.el9 baseos 334 k ocaml-srpm-macros noarch 6-6.el9 appstream 9.1 k openblas-srpm-macros noarch 2-11.el9 appstream 8.6 k openldap x86_64 2.6.2-3.el9 baseos 287 k openssl x86_64 1:3.0.1-43.el9_0 baseos 1.2 M openssl-libs x86_64 1:3.0.1-43.el9_0 baseos 2.1 M p11-kit x86_64 0.24.1-2.el9 baseos 387 k p11-kit-trust x86_64 0.24.1-2.el9 baseos 148 k pam x86_64 1.5.1-12.el9 baseos 625 k pcre x86_64 8.44-3.el9.3 baseos 202 k pcre2 x86_64 10.40-2.el9 baseos 239 k pcre2-syntax noarch 10.40-2.el9 baseos 147 k perl-Carp noarch 1.50-460.el9 appstream 31 k perl-Class-Struct noarch 0.66-479.el9 appstream 32 k perl-Encode x86_64 4:3.08-462.el9 appstream 1.7 M perl-Errno x86_64 1.30-479.el9 appstream 25 k perl-Exporter noarch 5.74-461.el9 appstream 34 k perl-Fcntl x86_64 1.13-479.el9 appstream 32 k perl-File-Basename noarch 2.85-479.el9 appstream 27 k perl-File-Path noarch 2.18-4.el9 appstream 38 k perl-File-Temp noarch 1:0.231.100-4.el9 appstream 63 k perl-File-stat noarch 1.09-479.el9 appstream 27 k perl-Getopt-Long noarch 1:2.52-4.el9 appstream 64 k perl-Getopt-Std noarch 1.12-479.el9 appstream 26 k perl-HTTP-Tiny noarch 0.076-460.el9 appstream 58 k perl-IO x86_64 1.43-479.el9 appstream 103 k perl-IPC-Open3 noarch 1.21-479.el9 appstream 34 k perl-MIME-Base64 x86_64 3.16-4.el9 appstream 34 k perl-POSIX x86_64 1.94-479.el9 appstream 108 k perl-PathTools x86_64 3.78-461.el9 appstream 92 k perl-Pod-Escapes noarch 1:1.07-460.el9 appstream 22 k perl-Pod-Perldoc noarch 3.28.01-461.el9 appstream 92 k perl-Pod-Simple noarch 1:3.42-4.el9 appstream 229 k perl-Pod-Usage noarch 4:2.01-4.el9 appstream 43 k perl-Scalar-List-Utils x86_64 4:1.56-461.el9 appstream 77 k perl-SelectSaver noarch 1.02-479.el9 appstream 22 k perl-Socket x86_64 4:2.031-4.el9 appstream 58 k perl-Storable x86_64 1:3.21-460.el9 appstream 98 k perl-Symbol noarch 1.08-479.el9 appstream 24 k perl-Term-ANSIColor noarch 5.01-461.el9 appstream 51 k perl-Term-Cap noarch 1.17-460.el9 appstream 24 k perl-Text-ParseWords noarch 3.30-460.el9 appstream 18 k perl-Text-Tabs+Wrap noarch 2013.0523-460.el9 appstream 25 k perl-Time-Local noarch 2:1.300-7.el9 appstream 37 k perl-constant noarch 1.33-461.el9 appstream 25 k perl-if noarch 0.60.800-479.el9 appstream 24 k perl-interpreter x86_64 4:5.32.1-479.el9 appstream 83 k perl-libs x86_64 4:5.32.1-479.el9 appstream 2.2 M perl-mro x86_64 1.23-479.el9 appstream 40 k perl-overload noarch 1.31-479.el9 appstream 56 k perl-overloading noarch 0.02-479.el9 appstream 23 k perl-parent noarch 1:0.238-460.el9 appstream 16 k perl-podlators noarch 1:4.14-460.el9 appstream 118 k perl-srpm-macros noarch 1-41.el9 appstream 9.4 k perl-subs noarch 1.03-479.el9 appstream 22 k perl-vars noarch 1.05-479.el9 appstream 23 k pkgconf x86_64 1.7.3-9.el9 baseos 45 k pkgconf-m4 noarch 1.7.3-9.el9 baseos 16 k pkgconf-pkg-config x86_64 1.7.3-9.el9 baseos 12 k popt x86_64 1.18-8.el9 baseos 69 k publicsuffix-list-dafsa noarch 20210518-3.el9 baseos 59 k python-srpm-macros noarch 3.9-52.el9 appstream 24 k qt5-srpm-macros noarch 5.15.3-1.el9 appstream 9.9 k readline x86_64 8.1-4.el9 baseos 215 k rpm x86_64 4.16.1.3-19.el9_1 baseos 542 k rpm-build-libs x86_64 4.16.1.3-19.el9_1 baseos 92 k rpm-libs x86_64 4.16.1.3-19.el9_1 baseos 309 k rust-srpm-macros noarch 17-4.el9 appstream 11 k setup noarch 2.13.7-7.el9 baseos 150 k sqlite-libs x86_64 3.34.1-5.el9 baseos 623 k systemd-libs x86_64 250-12.el9_1 baseos 638 k tzdata noarch 2022g-1.el9_1 baseos 839 k util-linux-core x86_64 2.37.4-9.el9 baseos 465 k xz-libs x86_64 5.2.5-8.el9_0 baseos 94 k zip x86_64 3.0-33.el9 baseos 242 k zlib x86_64 1.2.11-34.el9 baseos 93 k zstd x86_64 1.5.1-2.el9 baseos 552 k Transaction Summary ================================================================================ Install 185 Packages Total download size: 66 M Installed size: 210 M Downloading Packages: (1/185): libutempter-1.2.1-6.el9.x86_64.rpm 99 kB/s | 30 kB 00:00 (2/185): pkgconf-1.7.3-9.el9.x86_64.rpm 125 kB/s | 45 kB 00:00 (3/185): libpwquality-1.4.4-8.el9.x86_64.rpm 325 kB/s | 123 kB 00:00 (4/185): pkgconf-m4-1.7.3-9.el9.noarch.rpm 63 kB/s | 16 kB 00:00 (5/185): lz4-libs-1.9.3-5.el9.x86_64.rpm 334 kB/s | 69 kB 00:00 (6/185): bzip2-1.0.8-8.el9.x86_64.rpm 272 kB/s | 60 kB 00:00 (7/185): ed-1.14.2-12.el9.x86_64.rpm 336 kB/s | 78 kB 00:00 (8/185): libcap-2.48-8.el9.x86_64.rpm 245 kB/s | 76 kB 00:00 (9/185): ncurses-6.2-8.20210508.el9.x86_64.rpm 1.4 MB/s | 412 kB 00:00 (10/185): libacl-2.3.1-3.el9.x86_64.rpm 206 kB/s | 26 kB 00:00 (11/185): zip-3.0-33.el9.x86_64.rpm 1.0 MB/s | 242 kB 00:00 (12/185): cyrus-sasl-lib-2.1.27-20.el9.x86_64.r 2.8 MB/s | 774 kB 00:00 (13/185): libcap-ng-0.8.2-7.el9.x86_64.rpm 296 kB/s | 36 kB 00:00 (14/185): libtasn1-4.16.0-7.el9.x86_64.rpm 554 kB/s | 78 kB 00:00 (15/185): libnghttp2-1.43.0-5.el9.x86_64.rpm 439 kB/s | 76 kB 00:00 (16/185): pcre-8.44-3.el9.3.x86_64.rpm 1.7 MB/s | 202 kB 00:00 (17/185): filesystem-3.16-2.el9.x86_64.rpm 18 MB/s | 4.7 MB 00:00 (18/185): libssh-0.9.6-3.el9.x86_64.rpm 1.1 MB/s | 210 kB 00:00 (19/185): groff-base-1.22.4-10.el9.x86_64.rpm 7.6 MB/s | 1.1 MB 00:00 (20/185): unzip-6.0-56.el9.x86_64.rpm 1.1 MB/s | 186 kB 00:00 (21/185): info-6.7-15.el9.x86_64.rpm 723 kB/s | 228 kB 00:00 (22/185): grep-3.6-5.el9.x86_64.rpm 1.8 MB/s | 273 kB 00:00 (23/185): sed-4.8-9.el9.x86_64.rpm 919 kB/s | 309 kB 00:00 (24/185): ncurses-libs-6.2-8.20210508.el9.x86_6 1.1 MB/s | 334 kB 00:00 (25/185): libunistring-0.9.10-15.el9.x86_64.rpm 2.2 MB/s | 499 kB 00:00 (26/185): libbrotli-1.0.9-6.el9.x86_64.rpm 2.2 MB/s | 317 kB 00:00 (27/185): libssh-config-0.9.6-3.el9.noarch.rpm 36 kB/s | 11 kB 00:00 (28/185): basesystem-11-13.el9.noarch.rpm 17 kB/s | 8.0 kB 00:00 (29/185): libverto-0.3.2-3.el9.x86_64.rpm 154 kB/s | 24 kB 00:00 (30/185): ncurses-base-6.2-8.20210508.el9.noarc 708 kB/s | 100 kB 00:00 (31/185): keyutils-libs-1.6.1-4.el9.x86_64.rpm 240 kB/s | 34 kB 00:00 (32/185): mpfr-4.1.0-7.el9.x86_64.rpm 2.4 MB/s | 329 kB 00:00 (33/185): libxcrypt-4.4.18-3.el9.x86_64.rpm 599 kB/s | 120 kB 00:00 (34/185): popt-1.18-8.el9.x86_64.rpm 469 kB/s | 69 kB 00:00 (35/185): readline-8.1-4.el9.x86_64.rpm 1.7 MB/s | 215 kB 00:00 (36/185): cracklib-2.9.6-27.el9.x86_64.rpm 736 kB/s | 99 kB 00:00 (37/185): libidn2-2.3.0-7.el9.x86_64.rpm 329 kB/s | 105 kB 00:00 (38/185): libevent-2.1.12-6.el9.x86_64.rpm 844 kB/s | 268 kB 00:00 (39/185): sqlite-libs-3.34.1-5.el9.x86_64.rpm 1.4 MB/s | 623 kB 00:00 (40/185): libgpg-error-1.42-5.el9.x86_64.rpm 935 kB/s | 220 kB 00:00 (41/185): libffi-3.4.2-7.el9.x86_64.rpm 160 kB/s | 40 kB 00:00 (42/185): p11-kit-0.24.1-2.el9.x86_64.rpm 2.0 MB/s | 387 kB 00:00 (43/185): libpsl-0.21.1-5.el9.x86_64.rpm 211 kB/s | 66 kB 00:00 (44/185): libzstd-1.5.1-2.el9.x86_64.rpm 719 kB/s | 332 kB 00:00 (45/185): publicsuffix-list-dafsa-20210518-3.el 233 kB/s | 59 kB 00:00 (46/185): libdb-5.3.28-53.el9.x86_64.rpm 2.5 MB/s | 740 kB 00:00 (47/185): libeconf-0.4.1-2.el9.x86_64.rpm 157 kB/s | 31 kB 00:00 (48/185): gmp-6.2.0-10.el9.x86_64.rpm 1.1 MB/s | 320 kB 00:00 (49/185): libsigsegv-2.13-4.el9.x86_64.rpm 127 kB/s | 30 kB 00:00 (50/185): libattr-2.5.1-3.el9.x86_64.rpm 69 kB/s | 20 kB 00:00 (51/185): alternatives-1.20-2.el9.x86_64.rpm 99 kB/s | 40 kB 00:00 (52/185): bzip2-libs-1.0.8-8.el9.x86_64.rpm 238 kB/s | 42 kB 00:00 (53/185): libpkgconf-1.7.3-9.el9.x86_64.rpm 300 kB/s | 38 kB 00:00 (54/185): findutils-4.8.0-5.el9.x86_64.rpm 2.5 MB/s | 552 kB 00:00 (55/185): pkgconf-pkg-config-1.7.3-9.el9.x86_64 56 kB/s | 12 kB 00:00 (56/185): coreutils-8.32-32.el9.x86_64.rpm 7.9 MB/s | 1.2 MB 00:00 (57/185): libsmartcols-2.37.4-9.el9.x86_64.rpm 299 kB/s | 66 kB 00:00 (58/185): binutils-2.35.2-24.el9.x86_64.rpm 12 MB/s | 4.6 MB 00:00 (59/185): cpio-2.13-16.el9.x86_64.rpm 276 kB/s | 279 kB 00:01 (60/185): gdbm-libs-1.19-4.el9.x86_64.rpm 70 kB/s | 56 kB 00:00 (61/185): ca-certificates-2022.2.54-90.2.el9_0. 5.5 MB/s | 835 kB 00:00 (62/185): libgcc-11.3.1-2.1.el9.x86_64.rpm 769 kB/s | 119 kB 00:00 (63/185): libgcrypt-1.10.0-8.el9_0.x86_64.rpm 1.7 MB/s | 513 kB 00:00 (64/185): cracklib-dicts-2.9.6-27.el9.x86_64.rp 18 MB/s | 3.6 MB 00:00 (65/185): shadow-utils-4.9-5.el9.x86_64.rpm 6.2 MB/s | 1.2 MB 00:00 (66/185): xz-5.2.5-8.el9_0.x86_64.rpm 1.3 MB/s | 230 kB 00:00 (67/185): glibc-2.34-40.el9.x86_64.rpm 6.1 MB/s | 1.9 MB 00:00 (68/185): zlib-1.2.11-34.el9.x86_64.rpm 336 kB/s | 93 kB 00:00 (69/185): binutils-gold-2.35.2-24.el9.x86_64.rp 4.3 MB/s | 738 kB 00:00 (70/185): xz-libs-5.2.5-8.el9_0.x86_64.rpm 471 kB/s | 94 kB 00:00 (71/185): which-2.21-28.el9.x86_64.rpm 231 kB/s | 45 kB 00:00 (72/185): bash-5.1.8-5.el9.x86_64.rpm 9.5 MB/s | 1.7 MB 00:00 (73/185): curl-7.76.1-19.el9.x86_64.rpm 563 kB/s | 300 kB 00:00 (74/185): p11-kit-trust-0.24.1-2.el9.x86_64.rpm 1.2 MB/s | 148 kB 00:00 (75/185): lua-libs-5.4.2-4.el9_0.3.x86_64.rpm 236 kB/s | 214 kB 00:00 (76/185): pcre2-syntax-10.40-2.el9.noarch.rpm 1.2 MB/s | 147 kB 00:00 (77/185): elfutils-debuginfod-client-0.187-5.el 287 kB/s | 41 kB 00:00 (78/185): libfdisk-2.37.4-9.el9.x86_64.rpm 1.0 MB/s | 156 kB 00:00 (79/185): util-linux-core-2.37.4-9.el9.x86_64.r 3.7 MB/s | 465 kB 00:00 (80/185): zstd-1.5.1-2.el9.x86_64.rpm 3.7 MB/s | 552 kB 00:00 (81/185): libgomp-11.3.1-2.1.el9.x86_64.rpm 1.6 MB/s | 294 kB 00:00 (82/185): pam-1.5.1-12.el9.x86_64.rpm 5.0 MB/s | 625 kB 00:00 (83/185): openssl-3.0.1-43.el9_0.x86_64.rpm 7.6 MB/s | 1.2 MB 00:00 (84/185): libxml2-2.9.13-2.el9.x86_64.rpm 6.5 MB/s | 752 kB 00:00 (85/185): diffutils-3.7-12.el9.x86_64.rpm 2.7 MB/s | 402 kB 00:00 (86/185): elfutils-0.187-5.el9.x86_64.rpm 4.1 MB/s | 533 kB 00:00 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-------------------------------------------------------------------------------- Total 5.3 MB/s | 66 MB 00:12 Red Hat Enterprise Linux - BaseOS 3.5 MB/s | 3.6 kB 00:00 Importing GPG key 0xFD431D51: Userid : "Red Hat, Inc. (release key 2) " Fingerprint: 567E 347A D004 4ADE 55BA 8A5F 199E 2F91 FD43 1D51 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Importing GPG key 0x5A6340B3: Userid : "Red Hat, Inc. (auxiliary key 3) " Fingerprint: 7E46 2425 8C40 6535 D56D 6F13 5054 E4A4 5A63 40B3 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Extra Packages for Enterprise Linux 9 - x86_64 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x3228467C: Userid : "Fedora (epel9) " Fingerprint: FF8A D134 4597 106E CE81 3B91 8A38 72BF 3228 467C From : /usr/share/distribution-gpg-keys/epel/RPM-GPG-KEY-EPEL-9 Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.16-2.el9.x86_64 1/1 Preparing : 1/1 Installing : libgcc-11.3.1-2.1.el9.x86_64 1/185 Running scriptlet: libgcc-11.3.1-2.1.el9.x86_64 1/185 Installing : crypto-policies-20220815-1.git0fbe86f.el9.noarch 2/185 Running scriptlet: crypto-policies-20220815-1.git0fbe86f.el9.noarch 2/185 Installing : redhat-release-9.1-1.9.el9.x86_64 3/185 Installing : setup-2.13.7-7.el9.noarch 4/185 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.13.7-7.el9.noarch 4/185 Installing : filesystem-3.16-2.el9.x86_64 5/185 Installing : basesystem-11-13.el9.noarch 6/185 Installing : ansible-srpm-macros-1-8.1.el9.noarch 7/185 Installing : qt5-srpm-macros-5.15.3-1.el9.noarch 8/185 Installing : ocaml-srpm-macros-6-6.el9.noarch 9/185 Installing : openblas-srpm-macros-2-11.el9.noarch 10/185 Installing : perl-srpm-macros-1-41.el9.noarch 11/185 Installing : ghc-srpm-macros-1.5.0-6.el9.noarch 12/185 Installing : rust-srpm-macros-17-4.el9.noarch 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perl-Symbol-1.08-479.el9.noarch 83/185 Installing : perl-Socket-4:2.031-4.el9.x86_64 84/185 Installing : perl-File-stat-1.09-479.el9.noarch 85/185 Installing : perl-Pod-Perldoc-3.28.01-461.el9.noarch 86/185 Installing : perl-podlators-1:4.14-460.el9.noarch 87/185 Installing : perl-mro-1.23-479.el9.x86_64 88/185 Installing : perl-Fcntl-1.13-479.el9.x86_64 89/185 Installing : perl-Text-ParseWords-3.30-460.el9.noarch 90/185 Installing : perl-overloading-0.02-479.el9.noarch 91/185 Installing : perl-IO-1.43-479.el9.x86_64 92/185 Installing : perl-Pod-Usage-4:2.01-4.el9.noarch 93/185 Installing : perl-parent-1:0.238-460.el9.noarch 94/185 Installing : perl-vars-1.05-479.el9.noarch 95/185 Installing : perl-File-Basename-2.85-479.el9.noarch 96/185 Installing : perl-MIME-Base64-3.16-4.el9.x86_64 97/185 Installing : perl-Getopt-Std-1.12-479.el9.noarch 98/185 Installing : perl-Scalar-List-Utils-4:1.56-461.el9.x86_64 99/185 Installing : perl-constant-1.33-461.el9.noarch 100/185 Installing : perl-overload-1.31-479.el9.noarch 101/185 Installing : perl-Errno-1.30-479.el9.x86_64 102/185 Installing : perl-Storable-1:3.21-460.el9.x86_64 103/185 Installing : perl-Getopt-Long-1:2.52-4.el9.noarch 104/185 Installing : perl-Exporter-5.74-461.el9.noarch 105/185 Installing : perl-Carp-1.50-460.el9.noarch 106/185 Installing : perl-PathTools-3.78-461.el9.x86_64 107/185 Installing : perl-Encode-4:3.08-462.el9.x86_64 108/185 Installing : perl-libs-4:5.32.1-479.el9.x86_64 109/185 Installing : perl-interpreter-4:5.32.1-479.el9.x86_64 110/185 Installing : kernel-srpm-macros-1.0-11.el9.noarch 111/185 Installing : libnghttp2-1.43.0-5.el9.x86_64 112/185 Installing : libtasn1-4.16.0-7.el9.x86_64 113/185 Installing : pcre-8.44-3.el9.3.x86_64 114/185 Installing : grep-3.6-5.el9.x86_64 115/185 Installing : xz-5.2.5-8.el9_0.x86_64 116/185 Installing : libbrotli-1.0.9-6.el9.x86_64 117/185 Installing : libverto-0.3.2-3.el9.x86_64 118/185 Installing : keyutils-libs-1.6.1-4.el9.x86_64 119/185 Installing : libgpg-error-1.42-5.el9.x86_64 120/185 Installing : libgcrypt-1.10.0-8.el9_0.x86_64 121/185 Installing : libffi-3.4.2-7.el9.x86_64 122/185 Installing : p11-kit-0.24.1-2.el9.x86_64 123/185 Installing : p11-kit-trust-0.24.1-2.el9.x86_64 124/185 Running scriptlet: p11-kit-trust-0.24.1-2.el9.x86_64 124/185 Installing : libdb-5.3.28-53.el9.x86_64 125/185 Installing : libeconf-0.4.1-2.el9.x86_64 126/185 Installing : libpkgconf-1.7.3-9.el9.x86_64 127/185 Installing : pkgconf-1.7.3-9.el9.x86_64 128/185 Installing : cpio-2.13-16.el9.x86_64 129/185 Installing : gdbm-libs-1:1.19-4.el9.x86_64 130/185 Installing : libgomp-11.3.1-2.1.el9.x86_64 131/185 Installing : diffutils-3.7-12.el9.x86_64 132/185 Installing : pcre2-10.40-2.el9.x86_64 133/185 Installing : libselinux-3.4-3.el9.x86_64 134/185 Installing : sed-4.8-9.el9.x86_64 135/185 Installing : findutils-1:4.8.0-5.el9.x86_64 136/185 Installing : openssl-libs-1:3.0.1-43.el9_0.x86_64 137/185 Installing : coreutils-8.32-32.el9.x86_64 138/185 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 139/185 Installing : ca-certificates-2022.2.54-90.2.el9_0.noarch 139/185 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 139/185 Installing : libblkid-2.37.4-9.el9.x86_64 140/185 Running scriptlet: libblkid-2.37.4-9.el9.x86_64 140/185 Installing : krb5-libs-1.19.1-24.el9_1.x86_64 141/185 Installing : libmount-2.37.4-9.el9.x86_64 142/185 Installing : systemd-libs-250-12.el9_1.x86_64 143/185 Running scriptlet: systemd-libs-250-12.el9_1.x86_64 143/185 Installing : gzip-1.12-1.el9.x86_64 144/185 Installing : cracklib-2.9.6-27.el9.x86_64 145/185 Installing : cracklib-dicts-2.9.6-27.el9.x86_64 146/185 Installing : util-linux-core-2.37.4-9.el9.x86_64 147/185 Running scriptlet: util-linux-core-2.37.4-9.el9.x86_64 147/185 Installing : cyrus-sasl-lib-2.1.27-20.el9.x86_64 148/185 Installing : libfdisk-2.37.4-9.el9.x86_64 149/185 Installing : openssl-1:3.0.1-43.el9_0.x86_64 150/185 Installing : pam-1.5.1-12.el9.x86_64 151/185 Installing : libpwquality-1.4.4-8.el9.x86_64 152/185 Installing : libevent-2.1.12-6.el9.x86_64 153/185 Installing : openldap-2.6.2-3.el9.x86_64 154/185 Installing : libarchive-3.5.3-3.el9.x86_64 155/185 Installing : libsemanage-3.4-2.el9.x86_64 156/185 Installing : shadow-utils-2:4.9-5.el9.x86_64 157/185 Running scriptlet: libutempter-1.2.1-6.el9.x86_64 158/185 Installing : libutempter-1.2.1-6.el9.x86_64 158/185 Installing : tar-2:1.34-5.el9.x86_64 159/185 Installing : patch-2.7.6-16.el9.x86_64 160/185 Installing : libssh-config-0.9.6-3.el9.noarch 161/185 Installing : libssh-0.9.6-3.el9.x86_64 162/185 Installing : libcurl-7.76.1-19.el9.x86_64 163/185 Installing : elfutils-debuginfod-client-0.187-5.el9.x86_64 164/185 Installing : binutils-gold-2.35.2-24.el9.x86_64 165/185 Installing : binutils-2.35.2-24.el9.x86_64 166/185 Running scriptlet: binutils-2.35.2-24.el9.x86_64 166/185 Installing : elfutils-0.187-5.el9.x86_64 167/185 Installing : gdb-minimal-10.2-10.el9.x86_64 168/185 Installing : curl-7.76.1-19.el9.x86_64 169/185 Installing : rpm-libs-4.16.1.3-19.el9_1.x86_64 170/185 Installing : rpm-4.16.1.3-19.el9_1.x86_64 171/185 Installing : lua-srpm-macros-1-6.el9.noarch 172/185 Installing : efi-srpm-macros-6-2.el9_0.noarch 173/185 Installing : python-srpm-macros-3.9-52.el9.noarch 174/185 Installing : fonts-srpm-macros-1:2.0.5-7.el9.1.noarch 175/185 Installing : go-srpm-macros-3.0.9-9.el9.noarch 176/185 Installing : redhat-rpm-config-196-1.el9.noarch 177/185 Installing : go-srpm-macros-epel-1-8.el9.noarch 178/185 Installing : rpm-build-libs-4.16.1.3-19.el9_1.x86_64 179/185 Installing : pkgconf-m4-1.7.3-9.el9.noarch 180/185 Installing : pkgconf-pkg-config-1.7.3-9.el9.x86_64 181/185 Installing : rpm-build-4.16.1.3-19.el9_1.x86_64 182/185 Installing : epel-rpm-macros-9-7.el9.noarch 183/185 Installing : util-linux-2.37.4-9.el9.x86_64 184/185 Installing : which-2.21-28.el9.x86_64 185/185 Running scriptlet: filesystem-3.16-2.el9.x86_64 185/185 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 185/185 Running scriptlet: rpm-4.16.1.3-19.el9_1.x86_64 185/185 Running scriptlet: which-2.21-28.el9.x86_64 185/185 Verifying : pkgconf-1.7.3-9.el9.x86_64 1/185 Verifying : libpwquality-1.4.4-8.el9.x86_64 2/185 Verifying : libutempter-1.2.1-6.el9.x86_64 3/185 Verifying : pkgconf-m4-1.7.3-9.el9.noarch 4/185 Verifying : lz4-libs-1.9.3-5.el9.x86_64 5/185 Verifying : bzip2-1.0.8-8.el9.x86_64 6/185 Verifying : libcap-2.48-8.el9.x86_64 7/185 Verifying : ncurses-6.2-8.20210508.el9.x86_64 8/185 Verifying : ed-1.14.2-12.el9.x86_64 9/185 Verifying : cyrus-sasl-lib-2.1.27-20.el9.x86_64 10/185 Verifying : zip-3.0-33.el9.x86_64 11/185 Verifying : libacl-2.3.1-3.el9.x86_64 12/185 Verifying : libcap-ng-0.8.2-7.el9.x86_64 13/185 Verifying : libnghttp2-1.43.0-5.el9.x86_64 14/185 Verifying : filesystem-3.16-2.el9.x86_64 15/185 Verifying : libtasn1-4.16.0-7.el9.x86_64 16/185 Verifying : pcre-8.44-3.el9.3.x86_64 17/185 Verifying : libssh-0.9.6-3.el9.x86_64 18/185 Verifying : info-6.7-15.el9.x86_64 19/185 Verifying : groff-base-1.22.4-10.el9.x86_64 20/185 Verifying : unzip-6.0-56.el9.x86_64 21/185 Verifying : sed-4.8-9.el9.x86_64 22/185 Verifying : ncurses-libs-6.2-8.20210508.el9.x86_64 23/185 Verifying : grep-3.6-5.el9.x86_64 24/185 Verifying : libunistring-0.9.10-15.el9.x86_64 25/185 Verifying : basesystem-11-13.el9.noarch 26/185 Verifying : libssh-config-0.9.6-3.el9.noarch 27/185 Verifying : libbrotli-1.0.9-6.el9.x86_64 28/185 Verifying : libverto-0.3.2-3.el9.x86_64 29/185 Verifying : ncurses-base-6.2-8.20210508.el9.noarch 30/185 Verifying : libxcrypt-4.4.18-3.el9.x86_64 31/185 Verifying : keyutils-libs-1.6.1-4.el9.x86_64 32/185 Verifying : mpfr-4.1.0-7.el9.x86_64 33/185 Verifying : popt-1.18-8.el9.x86_64 34/185 Verifying : readline-8.1-4.el9.x86_64 35/185 Verifying : cracklib-2.9.6-27.el9.x86_64 36/185 Verifying : libidn2-2.3.0-7.el9.x86_64 37/185 Verifying : libevent-2.1.12-6.el9.x86_64 38/185 Verifying : sqlite-libs-3.34.1-5.el9.x86_64 39/185 Verifying : libgpg-error-1.42-5.el9.x86_64 40/185 Verifying : libffi-3.4.2-7.el9.x86_64 41/185 Verifying : libzstd-1.5.1-2.el9.x86_64 42/185 Verifying : p11-kit-0.24.1-2.el9.x86_64 43/185 Verifying : libpsl-0.21.1-5.el9.x86_64 44/185 Verifying : publicsuffix-list-dafsa-20210518-3.el9.noarch 45/185 Verifying : libdb-5.3.28-53.el9.x86_64 46/185 Verifying : gmp-1:6.2.0-10.el9.x86_64 47/185 Verifying : libeconf-0.4.1-2.el9.x86_64 48/185 Verifying : libsigsegv-2.13-4.el9.x86_64 49/185 Verifying : alternatives-1.20-2.el9.x86_64 50/185 Verifying : libattr-2.5.1-3.el9.x86_64 51/185 Verifying : bzip2-libs-1.0.8-8.el9.x86_64 52/185 Verifying : libpkgconf-1.7.3-9.el9.x86_64 53/185 Verifying : cpio-2.13-16.el9.x86_64 54/185 Verifying : findutils-1:4.8.0-5.el9.x86_64 55/185 Verifying : pkgconf-pkg-config-1.7.3-9.el9.x86_64 56/185 Verifying : coreutils-8.32-32.el9.x86_64 57/185 Verifying : gdbm-libs-1:1.19-4.el9.x86_64 58/185 Verifying : libsmartcols-2.37.4-9.el9.x86_64 59/185 Verifying : binutils-2.35.2-24.el9.x86_64 60/185 Verifying : ca-certificates-2022.2.54-90.2.el9_0.noarch 61/185 Verifying : libgcrypt-1.10.0-8.el9_0.x86_64 62/185 Verifying : libgcc-11.3.1-2.1.el9.x86_64 63/185 Verifying : cracklib-dicts-2.9.6-27.el9.x86_64 64/185 Verifying : shadow-utils-2:4.9-5.el9.x86_64 65/185 Verifying : xz-5.2.5-8.el9_0.x86_64 66/185 Verifying : glibc-2.34-40.el9.x86_64 67/185 Verifying : zlib-1.2.11-34.el9.x86_64 68/185 Verifying : lua-libs-5.4.2-4.el9_0.3.x86_64 69/185 Verifying : binutils-gold-2.35.2-24.el9.x86_64 70/185 Verifying : xz-libs-5.2.5-8.el9_0.x86_64 71/185 Verifying : curl-7.76.1-19.el9.x86_64 72/185 Verifying : which-2.21-28.el9.x86_64 73/185 Verifying : bash-5.1.8-5.el9.x86_64 74/185 Verifying : p11-kit-trust-0.24.1-2.el9.x86_64 75/185 Verifying : elfutils-debuginfod-client-0.187-5.el9.x86_64 76/185 Verifying : pcre2-syntax-10.40-2.el9.noarch 77/185 Verifying : libfdisk-2.37.4-9.el9.x86_64 78/185 Verifying : zstd-1.5.1-2.el9.x86_64 79/185 Verifying : util-linux-core-2.37.4-9.el9.x86_64 80/185 Verifying : libgomp-11.3.1-2.1.el9.x86_64 81/185 Verifying : openssl-1:3.0.1-43.el9_0.x86_64 82/185 Verifying : pam-1.5.1-12.el9.x86_64 83/185 Verifying : diffutils-3.7-12.el9.x86_64 84/185 Verifying : libxml2-2.9.13-2.el9.x86_64 85/185 Verifying : elfutils-0.187-5.el9.x86_64 86/185 Verifying : openssl-libs-1:3.0.1-43.el9_0.x86_64 87/185 Verifying : gawk-5.1.0-6.el9.x86_64 88/185 Verifying : setup-2.13.7-7.el9.noarch 89/185 Verifying : glibc-gconv-extra-2.34-40.el9.x86_64 90/185 Verifying : libcom_err-1.46.5-3.el9.x86_64 91/185 Verifying : libselinux-3.4-3.el9.x86_64 92/185 Verifying : glibc-common-2.34-40.el9.x86_64 93/185 Verifying : pcre2-10.40-2.el9.x86_64 94/185 Verifying : glibc-minimal-langpack-2.34-40.el9.x86_64 95/185 Verifying : libmount-2.37.4-9.el9.x86_64 96/185 Verifying : libuuid-2.37.4-9.el9.x86_64 97/185 Verifying : redhat-release-9.1-1.9.el9.x86_64 98/185 Verifying : file-libs-5.39-10.el9.x86_64 99/185 Verifying : openldap-2.6.2-3.el9.x86_64 100/185 Verifying : audit-libs-3.0.7-103.el9.x86_64 101/185 Verifying : libsemanage-3.4-2.el9.x86_64 102/185 Verifying : util-linux-2.37.4-9.el9.x86_64 103/185 Verifying : systemd-libs-250-12.el9_1.x86_64 104/185 Verifying : elfutils-default-yama-scope-0.187-5.el9.noarch 105/185 Verifying : libcurl-7.76.1-19.el9.x86_64 106/185 Verifying : libarchive-3.5.3-3.el9.x86_64 107/185 Verifying : elfutils-libelf-0.187-5.el9.x86_64 108/185 Verifying : crypto-policies-20220815-1.git0fbe86f.el9.noarch 109/185 Verifying : libblkid-2.37.4-9.el9.x86_64 110/185 Verifying : file-5.39-10.el9.x86_64 111/185 Verifying : libsepol-3.4-1.1.el9.x86_64 112/185 Verifying : gzip-1.12-1.el9.x86_64 113/185 Verifying : elfutils-libs-0.187-5.el9.x86_64 114/185 Verifying : libstdc++-11.3.1-2.1.el9.x86_64 115/185 Verifying : coreutils-common-8.32-32.el9.x86_64 116/185 Verifying : tar-2:1.34-5.el9.x86_64 117/185 Verifying : rpm-build-libs-4.16.1.3-19.el9_1.x86_64 118/185 Verifying : rpm-libs-4.16.1.3-19.el9_1.x86_64 119/185 Verifying : rpm-4.16.1.3-19.el9_1.x86_64 120/185 Verifying : krb5-libs-1.19.1-24.el9_1.x86_64 121/185 Verifying : tzdata-2022g-1.el9_1.noarch 122/185 Verifying : perl-SelectSaver-1.02-479.el9.noarch 123/185 Verifying : perl-subs-1.03-479.el9.noarch 124/185 Verifying : lua-srpm-macros-1-6.el9.noarch 125/185 Verifying : perl-File-stat-1.09-479.el9.noarch 126/185 Verifying : rust-srpm-macros-17-4.el9.noarch 127/185 Verifying : ghc-srpm-macros-1.5.0-6.el9.noarch 128/185 Verifying : perl-Pod-Simple-1:3.42-4.el9.noarch 129/185 Verifying : perl-File-Basename-2.85-479.el9.noarch 130/185 Verifying : perl-Term-Cap-1.17-460.el9.noarch 131/185 Verifying : perl-Encode-4:3.08-462.el9.x86_64 132/185 Verifying : perl-Time-Local-2:1.300-7.el9.noarch 133/185 Verifying : perl-IPC-Open3-1.21-479.el9.noarch 134/185 Verifying : perl-libs-4:5.32.1-479.el9.x86_64 135/185 Verifying : perl-vars-1.05-479.el9.noarch 136/185 Verifying : perl-Pod-Escapes-1:1.07-460.el9.noarch 137/185 Verifying : python-srpm-macros-3.9-52.el9.noarch 138/185 Verifying : perl-podlators-1:4.14-460.el9.noarch 139/185 Verifying : perl-Storable-1:3.21-460.el9.x86_64 140/185 Verifying : perl-srpm-macros-1-41.el9.noarch 141/185 Verifying : perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch 142/185 Verifying : dwz-0.14-3.el9.x86_64 143/185 Verifying : perl-MIME-Base64-3.16-4.el9.x86_64 144/185 Verifying : perl-File-Temp-1:0.231.100-4.el9.noarch 145/185 Verifying : perl-Exporter-5.74-461.el9.noarch 146/185 Verifying : perl-Symbol-1.08-479.el9.noarch 147/185 Verifying : perl-parent-1:0.238-460.el9.noarch 148/185 Verifying : perl-Getopt-Long-1:2.52-4.el9.noarch 149/185 Verifying : perl-Socket-4:2.031-4.el9.x86_64 150/185 Verifying : kernel-srpm-macros-1.0-11.el9.noarch 151/185 Verifying : perl-Getopt-Std-1.12-479.el9.noarch 152/185 Verifying : openblas-srpm-macros-2-11.el9.noarch 153/185 Verifying : perl-Term-ANSIColor-5.01-461.el9.noarch 154/185 Verifying : perl-POSIX-1.94-479.el9.x86_64 155/185 Verifying : perl-Scalar-List-Utils-4:1.56-461.el9.x86_64 156/185 Verifying : perl-overload-1.31-479.el9.noarch 157/185 Verifying : perl-constant-1.33-461.el9.noarch 158/185 Verifying : perl-File-Path-2.18-4.el9.noarch 159/185 Verifying : perl-if-0.60.800-479.el9.noarch 160/185 Verifying : efi-srpm-macros-6-2.el9_0.noarch 161/185 Verifying : perl-Text-ParseWords-3.30-460.el9.noarch 162/185 Verifying : perl-HTTP-Tiny-0.076-460.el9.noarch 163/185 Verifying : perl-Pod-Usage-4:2.01-4.el9.noarch 164/185 Verifying : patch-2.7.6-16.el9.x86_64 165/185 Verifying : perl-Pod-Perldoc-3.28.01-461.el9.noarch 166/185 Verifying : perl-Class-Struct-0.66-479.el9.noarch 167/185 Verifying : perl-overloading-0.02-479.el9.noarch 168/185 Verifying : perl-interpreter-4:5.32.1-479.el9.x86_64 169/185 Verifying : perl-IO-1.43-479.el9.x86_64 170/185 Verifying : perl-Fcntl-1.13-479.el9.x86_64 171/185 Verifying : fonts-srpm-macros-1:2.0.5-7.el9.1.noarch 172/185 Verifying : ocaml-srpm-macros-6-6.el9.noarch 173/185 Verifying : perl-mro-1.23-479.el9.x86_64 174/185 Verifying : perl-Errno-1.30-479.el9.x86_64 175/185 Verifying : perl-Carp-1.50-460.el9.noarch 176/185 Verifying : go-srpm-macros-3.0.9-9.el9.noarch 177/185 Verifying : perl-PathTools-3.78-461.el9.x86_64 178/185 Verifying : qt5-srpm-macros-5.15.3-1.el9.noarch 179/185 Verifying : gdb-minimal-10.2-10.el9.x86_64 180/185 Verifying : redhat-rpm-config-196-1.el9.noarch 181/185 Verifying : rpm-build-4.16.1.3-19.el9_1.x86_64 182/185 Verifying : ansible-srpm-macros-1-8.1.el9.noarch 183/185 Verifying : epel-rpm-macros-9-7.el9.noarch 184/185 Verifying : go-srpm-macros-epel-1-8.el9.noarch 185/185 Installed products updated. Installed: alternatives-1.20-2.el9.x86_64 ansible-srpm-macros-1-8.1.el9.noarch audit-libs-3.0.7-103.el9.x86_64 basesystem-11-13.el9.noarch bash-5.1.8-5.el9.x86_64 binutils-2.35.2-24.el9.x86_64 binutils-gold-2.35.2-24.el9.x86_64 bzip2-1.0.8-8.el9.x86_64 bzip2-libs-1.0.8-8.el9.x86_64 ca-certificates-2022.2.54-90.2.el9_0.noarch coreutils-8.32-32.el9.x86_64 coreutils-common-8.32-32.el9.x86_64 cpio-2.13-16.el9.x86_64 cracklib-2.9.6-27.el9.x86_64 cracklib-dicts-2.9.6-27.el9.x86_64 crypto-policies-20220815-1.git0fbe86f.el9.noarch curl-7.76.1-19.el9.x86_64 cyrus-sasl-lib-2.1.27-20.el9.x86_64 diffutils-3.7-12.el9.x86_64 dwz-0.14-3.el9.x86_64 ed-1.14.2-12.el9.x86_64 efi-srpm-macros-6-2.el9_0.noarch elfutils-0.187-5.el9.x86_64 elfutils-debuginfod-client-0.187-5.el9.x86_64 elfutils-default-yama-scope-0.187-5.el9.noarch elfutils-libelf-0.187-5.el9.x86_64 elfutils-libs-0.187-5.el9.x86_64 epel-rpm-macros-9-7.el9.noarch file-5.39-10.el9.x86_64 file-libs-5.39-10.el9.x86_64 filesystem-3.16-2.el9.x86_64 findutils-1:4.8.0-5.el9.x86_64 fonts-srpm-macros-1:2.0.5-7.el9.1.noarch gawk-5.1.0-6.el9.x86_64 gdb-minimal-10.2-10.el9.x86_64 gdbm-libs-1:1.19-4.el9.x86_64 ghc-srpm-macros-1.5.0-6.el9.noarch glibc-2.34-40.el9.x86_64 glibc-common-2.34-40.el9.x86_64 glibc-gconv-extra-2.34-40.el9.x86_64 glibc-minimal-langpack-2.34-40.el9.x86_64 gmp-1:6.2.0-10.el9.x86_64 go-srpm-macros-3.0.9-9.el9.noarch go-srpm-macros-epel-1-8.el9.noarch grep-3.6-5.el9.x86_64 groff-base-1.22.4-10.el9.x86_64 gzip-1.12-1.el9.x86_64 info-6.7-15.el9.x86_64 kernel-srpm-macros-1.0-11.el9.noarch keyutils-libs-1.6.1-4.el9.x86_64 krb5-libs-1.19.1-24.el9_1.x86_64 libacl-2.3.1-3.el9.x86_64 libarchive-3.5.3-3.el9.x86_64 libattr-2.5.1-3.el9.x86_64 libblkid-2.37.4-9.el9.x86_64 libbrotli-1.0.9-6.el9.x86_64 libcap-2.48-8.el9.x86_64 libcap-ng-0.8.2-7.el9.x86_64 libcom_err-1.46.5-3.el9.x86_64 libcurl-7.76.1-19.el9.x86_64 libdb-5.3.28-53.el9.x86_64 libeconf-0.4.1-2.el9.x86_64 libevent-2.1.12-6.el9.x86_64 libfdisk-2.37.4-9.el9.x86_64 libffi-3.4.2-7.el9.x86_64 libgcc-11.3.1-2.1.el9.x86_64 libgcrypt-1.10.0-8.el9_0.x86_64 libgomp-11.3.1-2.1.el9.x86_64 libgpg-error-1.42-5.el9.x86_64 libidn2-2.3.0-7.el9.x86_64 libmount-2.37.4-9.el9.x86_64 libnghttp2-1.43.0-5.el9.x86_64 libpkgconf-1.7.3-9.el9.x86_64 libpsl-0.21.1-5.el9.x86_64 libpwquality-1.4.4-8.el9.x86_64 libselinux-3.4-3.el9.x86_64 libsemanage-3.4-2.el9.x86_64 libsepol-3.4-1.1.el9.x86_64 libsigsegv-2.13-4.el9.x86_64 libsmartcols-2.37.4-9.el9.x86_64 libssh-0.9.6-3.el9.x86_64 libssh-config-0.9.6-3.el9.noarch libstdc++-11.3.1-2.1.el9.x86_64 libtasn1-4.16.0-7.el9.x86_64 libunistring-0.9.10-15.el9.x86_64 libutempter-1.2.1-6.el9.x86_64 libuuid-2.37.4-9.el9.x86_64 libverto-0.3.2-3.el9.x86_64 libxcrypt-4.4.18-3.el9.x86_64 libxml2-2.9.13-2.el9.x86_64 libzstd-1.5.1-2.el9.x86_64 lua-libs-5.4.2-4.el9_0.3.x86_64 lua-srpm-macros-1-6.el9.noarch lz4-libs-1.9.3-5.el9.x86_64 mpfr-4.1.0-7.el9.x86_64 ncurses-6.2-8.20210508.el9.x86_64 ncurses-base-6.2-8.20210508.el9.noarch ncurses-libs-6.2-8.20210508.el9.x86_64 ocaml-srpm-macros-6-6.el9.noarch openblas-srpm-macros-2-11.el9.noarch openldap-2.6.2-3.el9.x86_64 openssl-1:3.0.1-43.el9_0.x86_64 openssl-libs-1:3.0.1-43.el9_0.x86_64 p11-kit-0.24.1-2.el9.x86_64 p11-kit-trust-0.24.1-2.el9.x86_64 pam-1.5.1-12.el9.x86_64 patch-2.7.6-16.el9.x86_64 pcre-8.44-3.el9.3.x86_64 pcre2-10.40-2.el9.x86_64 pcre2-syntax-10.40-2.el9.noarch perl-Carp-1.50-460.el9.noarch perl-Class-Struct-0.66-479.el9.noarch perl-Encode-4:3.08-462.el9.x86_64 perl-Errno-1.30-479.el9.x86_64 perl-Exporter-5.74-461.el9.noarch perl-Fcntl-1.13-479.el9.x86_64 perl-File-Basename-2.85-479.el9.noarch perl-File-Path-2.18-4.el9.noarch perl-File-Temp-1:0.231.100-4.el9.noarch perl-File-stat-1.09-479.el9.noarch perl-Getopt-Long-1:2.52-4.el9.noarch perl-Getopt-Std-1.12-479.el9.noarch perl-HTTP-Tiny-0.076-460.el9.noarch perl-IO-1.43-479.el9.x86_64 perl-IPC-Open3-1.21-479.el9.noarch perl-MIME-Base64-3.16-4.el9.x86_64 perl-POSIX-1.94-479.el9.x86_64 perl-PathTools-3.78-461.el9.x86_64 perl-Pod-Escapes-1:1.07-460.el9.noarch perl-Pod-Perldoc-3.28.01-461.el9.noarch perl-Pod-Simple-1:3.42-4.el9.noarch perl-Pod-Usage-4:2.01-4.el9.noarch perl-Scalar-List-Utils-4:1.56-461.el9.x86_64 perl-SelectSaver-1.02-479.el9.noarch perl-Socket-4:2.031-4.el9.x86_64 perl-Storable-1:3.21-460.el9.x86_64 perl-Symbol-1.08-479.el9.noarch perl-Term-ANSIColor-5.01-461.el9.noarch perl-Term-Cap-1.17-460.el9.noarch perl-Text-ParseWords-3.30-460.el9.noarch perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch perl-Time-Local-2:1.300-7.el9.noarch perl-constant-1.33-461.el9.noarch perl-if-0.60.800-479.el9.noarch perl-interpreter-4:5.32.1-479.el9.x86_64 perl-libs-4:5.32.1-479.el9.x86_64 perl-mro-1.23-479.el9.x86_64 perl-overload-1.31-479.el9.noarch perl-overloading-0.02-479.el9.noarch perl-parent-1:0.238-460.el9.noarch perl-podlators-1:4.14-460.el9.noarch perl-srpm-macros-1-41.el9.noarch perl-subs-1.03-479.el9.noarch perl-vars-1.05-479.el9.noarch pkgconf-1.7.3-9.el9.x86_64 pkgconf-m4-1.7.3-9.el9.noarch pkgconf-pkg-config-1.7.3-9.el9.x86_64 popt-1.18-8.el9.x86_64 publicsuffix-list-dafsa-20210518-3.el9.noarch python-srpm-macros-3.9-52.el9.noarch qt5-srpm-macros-5.15.3-1.el9.noarch readline-8.1-4.el9.x86_64 redhat-release-9.1-1.9.el9.x86_64 redhat-rpm-config-196-1.el9.noarch rpm-4.16.1.3-19.el9_1.x86_64 rpm-build-4.16.1.3-19.el9_1.x86_64 rpm-build-libs-4.16.1.3-19.el9_1.x86_64 rpm-libs-4.16.1.3-19.el9_1.x86_64 rust-srpm-macros-17-4.el9.noarch sed-4.8-9.el9.x86_64 setup-2.13.7-7.el9.noarch shadow-utils-2:4.9-5.el9.x86_64 sqlite-libs-3.34.1-5.el9.x86_64 systemd-libs-250-12.el9_1.x86_64 tar-2:1.34-5.el9.x86_64 tzdata-2022g-1.el9_1.noarch unzip-6.0-56.el9.x86_64 util-linux-2.37.4-9.el9.x86_64 util-linux-core-2.37.4-9.el9.x86_64 which-2.21-28.el9.x86_64 xz-5.2.5-8.el9_0.x86_64 xz-libs-5.2.5-8.el9_0.x86_64 zip-3.0-33.el9.x86_64 zlib-1.2.11-34.el9.x86_64 zstd-1.5.1-2.el9.x86_64 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: ansible-srpm-macros-1-8.1.el9.noarch binutils-2.35.2-24.el9.x86_64 perl-vars-1.05-479.el9.noarch p11-kit-0.24.1-2.el9.x86_64 perl-Term-ANSIColor-5.01-461.el9.noarch pkgconf-1.7.3-9.el9.x86_64 perl-Text-ParseWords-3.30-460.el9.noarch perl-Getopt-Long-2.52-4.el9.noarch coreutils-8.32-32.el9.x86_64 libverto-0.3.2-3.el9.x86_64 sqlite-libs-3.34.1-5.el9.x86_64 kernel-srpm-macros-1.0-11.el9.noarch file-libs-5.39-10.el9.x86_64 perl-Class-Struct-0.66-479.el9.noarch gpg-pubkey-5a6340b3-6229229e info-6.7-15.el9.x86_64 pkgconf-pkg-config-1.7.3-9.el9.x86_64 perl-Term-Cap-1.17-460.el9.noarch elfutils-0.187-5.el9.x86_64 libdb-5.3.28-53.el9.x86_64 systemd-libs-250-12.el9_1.x86_64 libtasn1-4.16.0-7.el9.x86_64 gpg-pubkey-3228467c-613798eb dwz-0.14-3.el9.x86_64 libarchive-3.5.3-3.el9.x86_64 libunistring-0.9.10-15.el9.x86_64 perl-File-Basename-2.85-479.el9.noarch rpm-build-libs-4.16.1.3-19.el9_1.x86_64 qt5-srpm-macros-5.15.3-1.el9.noarch perl-Errno-1.30-479.el9.x86_64 gdbm-libs-1.19-4.el9.x86_64 openblas-srpm-macros-2-11.el9.noarch libsmartcols-2.37.4-9.el9.x86_64 perl-IO-1.43-479.el9.x86_64 perl-Pod-Perldoc-3.28.01-461.el9.noarch libcap-2.48-8.el9.x86_64 libblkid-2.37.4-9.el9.x86_64 perl-IPC-Open3-1.21-479.el9.noarch perl-File-Path-2.18-4.el9.noarch elfutils-default-yama-scope-0.187-5.el9.noarch pcre2-syntax-10.40-2.el9.noarch libffi-3.4.2-7.el9.x86_64 ed-1.14.2-12.el9.x86_64 file-5.39-10.el9.x86_64 zlib-1.2.11-34.el9.x86_64 diffutils-3.7-12.el9.x86_64 setup-2.13.7-7.el9.noarch openssl-3.0.1-43.el9_0.x86_64 tar-1.34-5.el9.x86_64 xz-5.2.5-8.el9_0.x86_64 perl-subs-1.03-479.el9.noarch rpm-libs-4.16.1.3-19.el9_1.x86_64 perl-podlators-4.14-460.el9.noarch cracklib-2.9.6-27.el9.x86_64 readline-8.1-4.el9.x86_64 perl-mro-1.23-479.el9.x86_64 perl-Pod-Simple-3.42-4.el9.noarch libevent-2.1.12-6.el9.x86_64 epel-rpm-macros-9-7.el9.noarch gpg-pubkey-fd431d51-4ae0493b libsemanage-3.4-2.el9.x86_64 zip-3.0-33.el9.x86_64 pcre-8.44-3.el9.3.x86_64 libgcc-11.3.1-2.1.el9.x86_64 lua-libs-5.4.2-4.el9_0.3.x86_64 go-srpm-macros-epel-1-8.el9.noarch perl-Carp-1.50-460.el9.noarch groff-base-1.22.4-10.el9.x86_64 cyrus-sasl-lib-2.1.27-20.el9.x86_64 gdb-minimal-10.2-10.el9.x86_64 perl-interpreter-5.32.1-479.el9.x86_64 libuuid-2.37.4-9.el9.x86_64 perl-HTTP-Tiny-0.076-460.el9.noarch libcurl-7.76.1-19.el9.x86_64 elfutils-debuginfod-client-0.187-5.el9.x86_64 gmp-6.2.0-10.el9.x86_64 libeconf-0.4.1-2.el9.x86_64 binutils-gold-2.35.2-24.el9.x86_64 grep-3.6-5.el9.x86_64 libfdisk-2.37.4-9.el9.x86_64 ncurses-base-6.2-8.20210508.el9.noarch libpsl-0.21.1-5.el9.x86_64 ocaml-srpm-macros-6-6.el9.noarch libxml2-2.9.13-2.el9.x86_64 libnghttp2-1.43.0-5.el9.x86_64 glibc-gconv-extra-2.34-40.el9.x86_64 libgcrypt-1.10.0-8.el9_0.x86_64 popt-1.18-8.el9.x86_64 ncurses-libs-6.2-8.20210508.el9.x86_64 libsigsegv-2.13-4.el9.x86_64 coreutils-common-8.32-32.el9.x86_64 perl-overload-1.31-479.el9.noarch util-linux-2.37.4-9.el9.x86_64 publicsuffix-list-dafsa-20210518-3.el9.noarch libacl-2.3.1-3.el9.x86_64 efi-srpm-macros-6-2.el9_0.noarch filesystem-3.16-2.el9.x86_64 alternatives-1.20-2.el9.x86_64 libpkgconf-1.7.3-9.el9.x86_64 libgomp-11.3.1-2.1.el9.x86_64 curl-7.76.1-19.el9.x86_64 rust-srpm-macros-17-4.el9.noarch libidn2-2.3.0-7.el9.x86_64 libutempter-1.2.1-6.el9.x86_64 util-linux-core-2.37.4-9.el9.x86_64 ghc-srpm-macros-1.5.0-6.el9.noarch redhat-rpm-config-196-1.el9.noarch perl-parent-0.238-460.el9.noarch perl-Symbol-1.08-479.el9.noarch gzip-1.12-1.el9.x86_64 which-2.21-28.el9.x86_64 zstd-1.5.1-2.el9.x86_64 perl-Time-Local-1.300-7.el9.noarch perl-Encode-3.08-462.el9.x86_64 fonts-srpm-macros-2.0.5-7.el9.1.noarch pam-1.5.1-12.el9.x86_64 perl-Fcntl-1.13-479.el9.x86_64 libmount-2.37.4-9.el9.x86_64 keyutils-libs-1.6.1-4.el9.x86_64 pkgconf-m4-1.7.3-9.el9.noarch lua-srpm-macros-1-6.el9.noarch rpm-build-4.16.1.3-19.el9_1.x86_64 libcap-ng-0.8.2-7.el9.x86_64 perl-Exporter-5.74-461.el9.noarch perl-File-Temp-0.231.100-4.el9.noarch libbrotli-1.0.9-6.el9.x86_64 cpio-2.13-16.el9.x86_64 pcre2-10.40-2.el9.x86_64 perl-File-stat-1.09-479.el9.noarch perl-constant-1.33-461.el9.noarch patch-2.7.6-16.el9.x86_64 crypto-policies-20220815-1.git0fbe86f.el9.noarch basesystem-11-13.el9.noarch glibc-minimal-langpack-2.34-40.el9.x86_64 ca-certificates-2022.2.54-90.2.el9_0.noarch cracklib-dicts-2.9.6-27.el9.x86_64 perl-Scalar-List-Utils-1.56-461.el9.x86_64 unzip-6.0-56.el9.x86_64 perl-Getopt-Std-1.12-479.el9.noarch libsepol-3.4-1.1.el9.x86_64 go-srpm-macros-3.0.9-9.el9.noarch rpm-4.16.1.3-19.el9_1.x86_64 perl-Pod-Usage-2.01-4.el9.noarch perl-Socket-2.031-4.el9.x86_64 libssh-config-0.9.6-3.el9.noarch glibc-2.34-40.el9.x86_64 bash-5.1.8-5.el9.x86_64 audit-libs-3.0.7-103.el9.x86_64 perl-libs-5.32.1-479.el9.x86_64 perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch elfutils-libs-0.187-5.el9.x86_64 elfutils-libelf-0.187-5.el9.x86_64 ncurses-6.2-8.20210508.el9.x86_64 libselinux-3.4-3.el9.x86_64 perl-Pod-Escapes-1.07-460.el9.noarch lz4-libs-1.9.3-5.el9.x86_64 perl-overloading-0.02-479.el9.noarch python-srpm-macros-3.9-52.el9.noarch findutils-4.8.0-5.el9.x86_64 xz-libs-5.2.5-8.el9_0.x86_64 tzdata-2022g-1.el9_1.noarch libxcrypt-4.4.18-3.el9.x86_64 perl-SelectSaver-1.02-479.el9.noarch libstdc++-11.3.1-2.1.el9.x86_64 libzstd-1.5.1-2.el9.x86_64 perl-srpm-macros-1-41.el9.noarch perl-POSIX-1.94-479.el9.x86_64 bzip2-1.0.8-8.el9.x86_64 bzip2-libs-1.0.8-8.el9.x86_64 mpfr-4.1.0-7.el9.x86_64 gawk-5.1.0-6.el9.x86_64 redhat-release-9.1-1.9.el9.x86_64 libgpg-error-1.42-5.el9.x86_64 openssl-libs-3.0.1-43.el9_0.x86_64 perl-MIME-Base64-3.16-4.el9.x86_64 krb5-libs-1.19.1-24.el9_1.x86_64 openldap-2.6.2-3.el9.x86_64 libssh-0.9.6-3.el9.x86_64 perl-PathTools-3.78-461.el9.x86_64 libcom_err-1.46.5-3.el9.x86_64 libpwquality-1.4.4-8.el9.x86_64 shadow-utils-4.9-5.el9.x86_64 p11-kit-trust-0.24.1-2.el9.x86_64 perl-if-0.60.800-479.el9.noarch sed-4.8-9.el9.x86_64 perl-Storable-3.21-460.el9.x86_64 glibc-common-2.34-40.el9.x86_64 libattr-2.5.1-3.el9.x86_64 Start: buildsrpm Start: rpmbuild -bs Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1672272000 Wrote: /builddir/build/SRPMS/htslib-1.15.1-1.el9.src.rpm Finish: rpmbuild -bs cp: ‘var/lib/mock/rhel+epel-9-x86_64-1674273919.724043/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/rhel+epel-9-x86_64-1674273919.724043/root/var/log/dnf.rpm.log /var/lib/mock/rhel+epel-9-x86_64-1674273919.724043/root/var/log/dnf.librepo.log /var/lib/mock/rhel+epel-9-x86_64-1674273919.724043/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-zhbzcdlu/htslib/htslib.spec) Config(child) 1 minutes 23 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running (timeout=18000): unbuffer mock --rebuild /var/lib/copr-rpmbuild/results/htslib-1.15.1-1.el9.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1674273919.724043 -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/htslib-1.15.1-1.el9.src.rpm) Config(rhel+epel-9-x86_64) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1674273919.724043/root. INFO: reusing tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1674273919.724043/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/rhel+epel-9-x86_64-1674273919.724043/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 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 35 kB/s | 3.6 kB 00:00 Additional repo copr_aminasyan_el9_collection 36 kB/s | 3.6 kB 00:00 Additional repo http_mirror_stream_centos_org_S 19 kB/s | 3.0 kB 00:00 Red Hat Enterprise Linux - BaseOS 14 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 15 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 15 kB/s | 4.0 kB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 325 kB/s | 28 kB 00:00 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for htslib-1.15.1-1.el9.src.rpm Start: build setup for htslib-1.15.1-1.el9.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1672272000 Wrote: /builddir/build/SRPMS/htslib-1.15.1-1.el9.src.rpm 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 40 kB/s | 3.6 kB 00:00 Additional repo copr_aminasyan_el9_collection 38 kB/s | 3.6 kB 00:00 Additional repo http_mirror_stream_centos_org_S 28 kB/s | 3.0 kB 00:00 Red Hat Enterprise Linux - BaseOS 18 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 12 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 12 kB/s | 4.0 kB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 242 kB/s | 28 kB 00:00 Package perl-Getopt-Long-1:2.52-4.el9.noarch is already installed. Package perl-interpreter-4:5.32.1-479.el9.x86_64 is already installed. Dependencies resolved. ================================================================================ Package Arch Version Repository Size ================================================================================ Installing: autoconf noarch 2.69-38.el9 appstream 685 k bzip2-devel x86_64 1.0.8-8.el9 appstream 216 k gcc x86_64 11.3.1-2.1.el9 appstream 32 M libcurl-devel x86_64 7.76.1-19.el9 appstream 982 k make x86_64 1:4.3-7.el9 baseos 542 k openssl-devel x86_64 1:3.0.1-43.el9_0 appstream 4.1 M perl-Data-Dumper x86_64 2.174-462.el9 appstream 59 k perl-FindBin noarch 1.51-479.el9 appstream 24 k perl-lib x86_64 0.65-479.el9 appstream 25 k xz-devel x86_64 5.2.5-8.el9_0 appstream 59 k zlib-devel x86_64 1.2.11-34.el9 appstream 47 k Installing dependencies: annobin x86_64 10.73-3.el9 appstream 965 k cpp x86_64 11.3.1-2.1.el9 appstream 11 M emacs-filesystem noarch 1:27.2-6.el9 appstream 10 k gcc-plugin-annobin x86_64 11.3.1-2.1.el9 appstream 70 k glibc-devel x86_64 2.34-40.el9 appstream 47 k glibc-headers x86_64 2.34-40.el9 appstream 547 k kernel-headers x86_64 5.14.0-162.6.1.el9_1 appstream 3.4 M libedit x86_64 3.1-37.20210216cvs.el9 baseos 108 k libmpc x86_64 1.2.1-4.el9 appstream 65 k libxcrypt-devel x86_64 4.4.18-3.el9 appstream 32 k llvm-libs x86_64 14.0.6-1.el9 appstream 20 M m4 x86_64 1.4.19-1.el9 appstream 304 k perl-B x86_64 1.80-479.el9 appstream 194 k perl-DynaLoader x86_64 1.47-479.el9 appstream 36 k perl-File-Compare noarch 1.100.600-479.el9 appstream 24 k perl-File-Copy noarch 2.34-479.el9 appstream 30 k perl-File-Find noarch 1.37-479.el9 appstream 36 k Transaction Summary ================================================================================ Install 28 Packages Total download size: 75 M Installed size: 219 M Downloading Packages: (1/28): libedit-3.1-37.20210216cvs.el9.x86_64.r 286 kB/s | 108 kB 00:00 (2/28): perl-Data-Dumper-2.174-462.el9.x86_64.r 129 kB/s | 59 kB 00:00 (3/28): make-4.3-7.el9.x86_64.rpm 1.1 MB/s | 542 kB 00:00 (4/28): perl-FindBin-1.51-479.el9.noarch.rpm 181 kB/s | 24 kB 00:00 (5/28): perl-File-Copy-2.34-479.el9.noarch.rpm 200 kB/s | 30 kB 00:00 (6/28): emacs-filesystem-27.2-6.el9.noarch.rpm 83 kB/s | 10 kB 00:00 (7/28): perl-DynaLoader-1.47-479.el9.x86_64.rpm 298 kB/s | 36 kB 00:00 (8/28): libmpc-1.2.1-4.el9.x86_64.rpm 438 kB/s | 65 kB 00:00 (9/28): libxcrypt-devel-4.4.18-3.el9.x86_64.rpm 224 kB/s | 32 kB 00:00 (10/28): bzip2-devel-1.0.8-8.el9.x86_64.rpm 851 kB/s | 216 kB 00:00 (11/28): perl-File-Find-1.37-479.el9.noarch.rpm 316 kB/s | 36 kB 00:00 (12/28): autoconf-2.69-38.el9.noarch.rpm 4.1 MB/s | 685 kB 00:00 (13/28): perl-B-1.80-479.el9.x86_64.rpm 1.6 MB/s | 194 kB 00:00 (14/28): m4-1.4.19-1.el9.x86_64.rpm 1.3 MB/s | 304 kB 00:00 (15/28): perl-lib-0.65-479.el9.x86_64.rpm 78 kB/s | 25 kB 00:00 (16/28): xz-devel-5.2.5-8.el9_0.x86_64.rpm 336 kB/s | 59 kB 00:00 (17/28): perl-File-Compare-1.100.600-479.el9.no 138 kB/s | 24 kB 00:00 (18/28): annobin-10.73-3.el9.x86_64.rpm 6.7 MB/s | 965 kB 00:00 (19/28): gcc-plugin-annobin-11.3.1-2.1.el9.x86_ 728 kB/s | 70 kB 00:00 (20/28): glibc-headers-2.34-40.el9.x86_64.rpm 3.4 MB/s | 547 kB 00:00 (21/28): openssl-devel-3.0.1-43.el9_0.x86_64.rp 13 MB/s | 4.1 MB 00:00 (22/28): glibc-devel-2.34-40.el9.x86_64.rpm 511 kB/s | 47 kB 00:00 (23/28): kernel-headers-5.14.0-162.6.1.el9_1.x8 12 MB/s | 3.4 MB 00:00 (24/28): cpp-11.3.1-2.1.el9.x86_64.rpm 30 MB/s | 11 MB 00:00 (25/28): zlib-devel-1.2.11-34.el9.x86_64.rpm 274 kB/s | 47 kB 00:00 (26/28): libcurl-devel-7.76.1-19.el9.x86_64.rpm 3.6 MB/s | 982 kB 00:00 (27/28): llvm-libs-14.0.6-1.el9.x86_64.rpm 23 MB/s | 20 MB 00:00 (28/28): gcc-11.3.1-2.1.el9.x86_64.rpm 26 MB/s | 32 MB 00:01 -------------------------------------------------------------------------------- Total 27 MB/s | 75 MB 00:02 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Preparing : 1/1 Installing : perl-B-1.80-479.el9.x86_64 1/28 Installing : perl-Data-Dumper-2.174-462.el9.x86_64 2/28 Installing : libmpc-1.2.1-4.el9.x86_64 3/28 Installing : cpp-11.3.1-2.1.el9.x86_64 4/28 Installing : kernel-headers-5.14.0-162.6.1.el9_1.x86_64 5/28 Installing : glibc-headers-2.34-40.el9.x86_64 6/28 Installing : glibc-devel-2.34-40.el9.x86_64 7/28 Installing : libxcrypt-devel-4.4.18-3.el9.x86_64 8/28 Installing : perl-File-Compare-1.100.600-479.el9.noarch 9/28 Installing : m4-1.4.19-1.el9.x86_64 10/28 Installing : perl-File-Find-1.37-479.el9.noarch 11/28 Installing : perl-DynaLoader-1.47-479.el9.x86_64 12/28 Installing : emacs-filesystem-1:27.2-6.el9.noarch 13/28 Installing : perl-File-Copy-2.34-479.el9.noarch 14/28 Installing : libedit-3.1-37.20210216cvs.el9.x86_64 15/28 Installing : llvm-libs-14.0.6-1.el9.x86_64 16/28 Installing : make-1:4.3-7.el9.x86_64 17/28 Installing : gcc-11.3.1-2.1.el9.x86_64 18/28 Installing : annobin-10.73-3.el9.x86_64 19/28 Running scriptlet: annobin-10.73-3.el9.x86_64 19/28 Installing : gcc-plugin-annobin-11.3.1-2.1.el9.x86_64 20/28 Running scriptlet: gcc-plugin-annobin-11.3.1-2.1.el9.x86_64 20/28 Installing : autoconf-2.69-38.el9.noarch 21/28 Installing : libcurl-devel-7.76.1-19.el9.x86_64 22/28 Installing : zlib-devel-1.2.11-34.el9.x86_64 23/28 Installing : openssl-devel-1:3.0.1-43.el9_0.x86_64 24/28 Installing : xz-devel-5.2.5-8.el9_0.x86_64 25/28 Installing : perl-lib-0.65-479.el9.x86_64 26/28 Installing : bzip2-devel-1.0.8-8.el9.x86_64 27/28 Installing : perl-FindBin-1.51-479.el9.noarch 28/28 Running scriptlet: perl-FindBin-1.51-479.el9.noarch 28/28 Verifying : make-1:4.3-7.el9.x86_64 1/28 Verifying : libedit-3.1-37.20210216cvs.el9.x86_64 2/28 Verifying : perl-Data-Dumper-2.174-462.el9.x86_64 3/28 Verifying : perl-FindBin-1.51-479.el9.noarch 4/28 Verifying : perl-File-Copy-2.34-479.el9.noarch 5/28 Verifying : emacs-filesystem-1:27.2-6.el9.noarch 6/28 Verifying : perl-DynaLoader-1.47-479.el9.x86_64 7/28 Verifying : bzip2-devel-1.0.8-8.el9.x86_64 8/28 Verifying : libmpc-1.2.1-4.el9.x86_64 9/28 Verifying : libxcrypt-devel-4.4.18-3.el9.x86_64 10/28 Verifying : autoconf-2.69-38.el9.noarch 11/28 Verifying : perl-File-Find-1.37-479.el9.noarch 12/28 Verifying : perl-lib-0.65-479.el9.x86_64 13/28 Verifying : m4-1.4.19-1.el9.x86_64 14/28 Verifying : perl-B-1.80-479.el9.x86_64 15/28 Verifying : xz-devel-5.2.5-8.el9_0.x86_64 16/28 Verifying : perl-File-Compare-1.100.600-479.el9.noarch 17/28 Verifying : openssl-devel-1:3.0.1-43.el9_0.x86_64 18/28 Verifying : annobin-10.73-3.el9.x86_64 19/28 Verifying : glibc-headers-2.34-40.el9.x86_64 20/28 Verifying : gcc-plugin-annobin-11.3.1-2.1.el9.x86_64 21/28 Verifying : glibc-devel-2.34-40.el9.x86_64 22/28 Verifying : kernel-headers-5.14.0-162.6.1.el9_1.x86_64 23/28 Verifying : cpp-11.3.1-2.1.el9.x86_64 24/28 Verifying : gcc-11.3.1-2.1.el9.x86_64 25/28 Verifying : llvm-libs-14.0.6-1.el9.x86_64 26/28 Verifying : zlib-devel-1.2.11-34.el9.x86_64 27/28 Verifying : libcurl-devel-7.76.1-19.el9.x86_64 28/28 Installed products updated. Installed: annobin-10.73-3.el9.x86_64 autoconf-2.69-38.el9.noarch bzip2-devel-1.0.8-8.el9.x86_64 cpp-11.3.1-2.1.el9.x86_64 emacs-filesystem-1:27.2-6.el9.noarch gcc-11.3.1-2.1.el9.x86_64 gcc-plugin-annobin-11.3.1-2.1.el9.x86_64 glibc-devel-2.34-40.el9.x86_64 glibc-headers-2.34-40.el9.x86_64 kernel-headers-5.14.0-162.6.1.el9_1.x86_64 libcurl-devel-7.76.1-19.el9.x86_64 libedit-3.1-37.20210216cvs.el9.x86_64 libmpc-1.2.1-4.el9.x86_64 libxcrypt-devel-4.4.18-3.el9.x86_64 llvm-libs-14.0.6-1.el9.x86_64 m4-1.4.19-1.el9.x86_64 make-1:4.3-7.el9.x86_64 openssl-devel-1:3.0.1-43.el9_0.x86_64 perl-B-1.80-479.el9.x86_64 perl-Data-Dumper-2.174-462.el9.x86_64 perl-DynaLoader-1.47-479.el9.x86_64 perl-File-Compare-1.100.600-479.el9.noarch perl-File-Copy-2.34-479.el9.noarch perl-File-Find-1.37-479.el9.noarch perl-FindBin-1.51-479.el9.noarch perl-lib-0.65-479.el9.x86_64 xz-devel-5.2.5-8.el9_0.x86_64 zlib-devel-1.2.11-34.el9.x86_64 Complete! Finish: build setup for htslib-1.15.1-1.el9.src.rpm Start: rpmbuild htslib-1.15.1-1.el9.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1672272000 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.xAR5LI + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf htslib-1.15.1 + /usr/bin/bzip2 -dc /builddir/build/SOURCES/htslib-1.15.1.tar.bz2 + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd htslib-1.15.1 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + echo 'Patch #0 (htslib-1.15.1-gcc12.patch):' + /usr/bin/patch --no-backup-if-mismatch -p1 --fuzz=0 Patch #0 (htslib-1.15.1-gcc12.patch): patching file htscodecs/htscodecs/rANS_word.h Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.VhvV28 + RPM_EC=0 ++ jobs -p + exit 0 + umask 022 + cd /builddir/build/BUILD + cd htslib-1.15.1 + 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 -m64 -march=x86-64-v2 -mtune=generic -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 -m64 -march=x86-64-v2 -mtune=generic -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + 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 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']' ++ find . -type f -name configure -print + for file in $(find . -type f -name configure -print) + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure + diff -u ./configure.backup ./configure --- ./configure.backup 2022-04-07 15:42:52.000000000 +0000 +++ ./configure 2023-01-21 04:07:01.474666087 +0000 @@ -1697,7 +1697,7 @@ #ifdef __cplusplus extern "C" #endif -char $2 (); +__attribute__ ((used)) char $2 (); /* The GNU C library defines this for functions which it implements to always fail with ENOSYS. Some functions are actually named something starting with __ and the normal name is an alias. */ + /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + '[' 1 = 1 ']' +++ dirname ./configure ++ find . -name config.guess -o -name config.sub + '[' 1 = 1 ']' + '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']' ++ find . -name ltmain.sh + ./configure --build=x86_64-redhat-linux-gnu --host=x86_64-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 ' --prefix=/usr --libdir=/usr/lib64 --enable-plugins '--with-plugin-path=/usr/local/libexec/htslib:$(plugindir)' --enable-gcs --enable-libcurl --enable-s3 configure: WARNING: unrecognized options: --disable-dependency-tracking checking for x86_64-redhat-linux-gnu-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 x86_64-redhat-linux-gnu-ranlib... no 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 x86_64-redhat-linux-gnu-pkg-config... /usr/bin/x86_64-redhat-linux-gnu-pkg-config checking pkg-config is at least version 0.9.0... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking shared library type for x86_64-redhat-linux-gnu... 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 dlsym... none required checking whether the compiler accepts -rdynamic... 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... yes checking for curl_easy_pause in -lcurl... yes checking for CCHmac... no checking for library containing HMAC... -lcrypto 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 configure: WARNING: unrecognized options: --disable-dependency-tracking + /usr/bin/make -O -j2 V=1 VERBOSE=1 gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o kfunc.o kfunc.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o kstring.o kstring.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o bcf_sr_sort.o bcf_sr_sort.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o errmod.o errmod.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o bgzf.o bgzf.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o faidx.o faidx.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o hfile.o hfile.c echo '#define HTS_VERSION_TEXT "1.15.1"' > version.h echo '#define HTS_CC "gcc"' > config_vars.h echo '#define HTS_CPPFLAGS ""' >> config_vars.h echo '#define HTS_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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden"' >> config_vars.h echo '#define HTS_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 -fvisibility=hidden -rdynamic"' >> config_vars.h echo '#define HTS_LIBS "-llzma -lbz2 -lz -lm "' >> config_vars.h gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o hts_expr.o hts_expr.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o hts_os.o hts_os.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o md5.o md5.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o header.o header.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o multipart.o multipart.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o probaln.o probaln.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o realn.o realn.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o region.o region.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o regidx.o regidx.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o synced_bcf_reader.o synced_bcf_reader.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o vcf_sweep.o vcf_sweep.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o tbx.o tbx.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o textutils.o textutils.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o thread_pool.o thread_pool.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o sam.o sam.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o vcfutils.o vcfutils.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o vcf.o vcf.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/cram_codecs.o cram/cram_codecs.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/cram_decode.o cram/cram_decode.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/cram_external.o cram/cram_external.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/cram_encode.o cram/cram_encode.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/cram_index.o cram/cram_index.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/cram_stats.o cram/cram_stats.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/mFILE.o cram/mFILE.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/open_trace_file.o cram/open_trace_file.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/pooled_alloc.o cram/pooled_alloc.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/string_alloc.o cram/string_alloc.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/arith_dynamic.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o cram/cram_io.o cram/cram_io.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/htscodecs.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/fqzcomp_qual.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htscodecs/htscodecs/pack.o htscodecs/htscodecs/pack.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rANS_static.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htscodecs/htscodecs/rle.o htscodecs/htscodecs/rle.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static4x16pr.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -DPLUGINPATH=\"/usr/local/libexec/htslib:/usr/libexec/htslib\" -c -o plugin.o plugin.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/tokenise_name3.c gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o kfunc.pico kfunc.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o kstring.pico kstring.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o bcf_sr_sort.pico bcf_sr_sort.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o errmod.pico errmod.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o bgzf.pico bgzf.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o faidx.pico faidx.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o hfile.pico hfile.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o header.pico header.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o hts_expr.pico hts_expr.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o hts_os.pico hts_os.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o md5.pico md5.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o multipart.pico multipart.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o probaln.pico probaln.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o realn.pico realn.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o regidx.pico regidx.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o hts.pico hts.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o region.pico region.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o synced_bcf_reader.pico synced_bcf_reader.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o vcf_sweep.pico vcf_sweep.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o tbx.pico tbx.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o textutils.pico textutils.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o thread_pool.pico thread_pool.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o sam.pico sam.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o vcfutils.pico vcfutils.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o vcf.pico vcf.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/cram_codecs.pico cram/cram_codecs.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/cram_decode.pico cram/cram_decode.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/cram_external.pico cram/cram_external.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/cram_index.pico cram/cram_index.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/cram_encode.pico cram/cram_encode.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/cram_stats.pico cram/cram_stats.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/mFILE.pico cram/mFILE.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/open_trace_file.pico cram/open_trace_file.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/pooled_alloc.pico cram/pooled_alloc.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/string_alloc.pico cram/string_alloc.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o htscodecs/htscodecs/arith_dynamic.pico htscodecs/htscodecs/arith_dynamic.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o cram/cram_io.pico cram/cram_io.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o htscodecs/htscodecs/htscodecs.pico htscodecs/htscodecs/htscodecs.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o htscodecs/htscodecs/pack.pico htscodecs/htscodecs/pack.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o htscodecs/htscodecs/fqzcomp_qual.pico htscodecs/htscodecs/fqzcomp_qual.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o htscodecs/htscodecs/rANS_static.pico htscodecs/htscodecs/rANS_static.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o htscodecs/htscodecs/rle.pico htscodecs/htscodecs/rle.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o htscodecs/htscodecs/rANS_static4x16pr.pico htscodecs/htscodecs/rANS_static4x16pr.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -DPLUGINPATH=\"/usr/local/libexec/htslib:/usr/libexec/htslib\" -fpic -c -o plugin.pico plugin.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o htscodecs/htscodecs/tokenise_name3.pico htscodecs/htscodecs/tokenise_name3.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o bgzip.o bgzip.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o htsfile.o htsfile.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o tabix.o tabix.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o hfile_gcs.pico hfile_gcs.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o hfile_libcurl.pico hfile_libcurl.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o hfile_s3_write.pico hfile_s3_write.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -fpic -c -o hfile_s3.pico hfile_s3.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/fieldarith.o test/fieldarith.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/hts_endian.o test/hts_endian.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/hfile.o test/hfile.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/pileup.o test/pileup.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/plugins-dlhts.o test/plugins-dlhts.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/pileup_mod.o test/pileup_mod.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_bgzf.o test/test_bgzf.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_expr.o test/test_expr.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_kfunc.o test/test_kfunc.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_kstring.o test/test_kstring.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/sam.o test/sam.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_mod.o test/test_mod.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_realn.o test/test_realn.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_str2int.o test/test_str2int.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test-regidx.o test/test-regidx.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_index.o test/test_index.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_view.o test/test_view.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test-vcf-sweep.o test/test-vcf-sweep.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test-vcf-api.o test/test-vcf-api.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test-bcf-sr.o test/test-bcf-sr.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/fuzz/hts_open_fuzzer.o test/fuzz/hts_open_fuzzer.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test-bcf-translate.o test/test-bcf-translate.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test-parse-reg.o test/test-parse-reg.c sed -n '/^static_libs=/s/[^=]*=/HTSLIB_static_LIBS = /p;/^static_ldflags=/s/[^=]*=/HTSLIB_static_LDFLAGS = /p' htslib.pc.tmp > htslib_static.mk sed -e 's#@-includedir@#'`pwd`'#g;s#@-libdir@#'`pwd`'#g' htslib.pc.tmp > htslib-uninstalled.pc gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o test/test_introspection.o test/test_introspection.c gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -c -o hts.o hts.c gcc -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 -fvisibility=hidden -rdynamic -o test/hts_endian test/hts_endian.o -llzma -lbz2 -lz -lm gcc -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 -fvisibility=hidden -rdynamic -o test/plugins-dlhts test/plugins-dlhts.o -llzma -lbz2 -lz -lm ar -rc libhts.a kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o plugin.o ranlib libhts.a gcc -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 -fvisibility=hidden -rdynamic -o bgzip bgzip.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -shared -Wl,-soname,libhts.so.3 -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 -fvisibility=hidden -rdynamic -o libhts.so kfunc.pico kstring.pico bcf_sr_sort.pico bgzf.pico errmod.pico faidx.pico header.pico hfile.pico hts.pico hts_expr.pico hts_os.pico md5.pico multipart.pico probaln.pico realn.pico regidx.pico region.pico sam.pico synced_bcf_reader.pico vcf_sweep.pico tbx.pico textutils.pico thread_pool.pico vcf.pico vcfutils.pico cram/cram_codecs.pico cram/cram_decode.pico cram/cram_encode.pico cram/cram_external.pico cram/cram_index.pico cram/cram_io.pico cram/cram_stats.pico cram/mFILE.pico cram/open_trace_file.pico cram/pooled_alloc.pico cram/string_alloc.pico htscodecs/htscodecs/arith_dynamic.pico htscodecs/htscodecs/fqzcomp_qual.pico htscodecs/htscodecs/htscodecs.pico htscodecs/htscodecs/pack.pico htscodecs/htscodecs/rANS_static4x16pr.pico htscodecs/htscodecs/rANS_static.pico htscodecs/htscodecs/rle.pico htscodecs/htscodecs/tokenise_name3.pico plugin.pico -llzma -lbz2 -lz -lm -lpthread ln -sf libhts.so libhts.so.3 gcc -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 -fvisibility=hidden -rdynamic -o htsfile htsfile.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -shared -Wl,-E -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 -fvisibility=hidden -rdynamic -o hfile_libcurl.so hfile_libcurl.pico libhts.so -llzma -lbz2 -lz -lm -lcurl -lpthread gcc -shared -Wl,-E -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 -fvisibility=hidden -rdynamic -o hfile_gcs.so hfile_gcs.pico libhts.so -llzma -lbz2 -lz -lm -lpthread gcc -shared -Wl,-E -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 -fvisibility=hidden -rdynamic -o hfile_s3.so hfile_s3.pico libhts.so -llzma -lbz2 -lz -lm -lcrypto -lpthread gcc -shared -Wl,-E -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 -fvisibility=hidden -rdynamic -o hfile_s3_write.so hfile_s3_write.pico libhts.so -llzma -lbz2 -lz -lm -lcrypto -lcurl -lpthread gcc -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 -fvisibility=hidden -rdynamic -o tabix tabix.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/fieldarith test/fieldarith.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/hfile test/hfile.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/pileup test/pileup.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/pileup_mod test/pileup_mod.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/sam test/sam.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_bgzf test/test_bgzf.o libhts.a -lz -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_kfunc test/test_kfunc.o libhts.a -lz -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_expr test/test_expr.o libhts.a -lz -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_kstring test/test_kstring.o libhts.a -lz -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_mod test/test_mod.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_realn test/test_realn.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test-regidx test/test-regidx.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_str2int test/test_str2int.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_view test/test_view.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_index test/test_index.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test-vcf-api test/test-vcf-api.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test-vcf-sweep test/test-vcf-sweep.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test-bcf-translate test/test-bcf-translate.o libhts.a -lz -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test-bcf-sr test/test-bcf-sr.o libhts.a -lz -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test-parse-reg test/test-parse-reg.o libhts.a -llzma -lbz2 -lz -lm -lpthread gcc -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 -fvisibility=hidden -rdynamic -o test/test_introspection test/test_introspection.o libhts.a -llzma -lbz2 -lz -lm -lpthread + sed -i -E '/^(Libs|Requires)\.private:/d' htslib.pc.tmp + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.WEhfL5 + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64 ++ dirname /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64 + cd htslib-1.15.1 + /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64 'INSTALL=/usr/bin/install -p' mkdir -p -m 755 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/bin /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/include /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/include/htslib /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/man/man1 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/man/man5 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/man/man7 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/pkgconfig if test -n "/usr/libexec/htslib"; then mkdir -p -m 755 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib; fi /usr/bin/install -p -m 644 libhts.so /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/libhts.so.1.15.1 ln -sf libhts.so.1.15.1 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/libhts.so ln -sf libhts.so.1.15.1 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/libhts.so.3 sed -e 's#@-includedir@#/usr/include#g;s#@-libdir@#/usr/lib64#g;s#@-PACKAGE_VERSION@#1.15.1#g' htslib.pc.tmp > /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/pkgconfig/htslib.pc chmod 644 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/pkgconfig/htslib.pc /usr/bin/install -p bgzip htsfile tabix /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/bin if test -n "hfile_libcurl.so hfile_gcs.so hfile_s3.so hfile_s3_write.so"; then /usr/bin/install -p hfile_libcurl.so hfile_gcs.so hfile_s3.so hfile_s3_write.so /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib; fi /usr/bin/install -p -m 644 htslib/*.h /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/include/htslib /usr/bin/install -p -m 644 libhts.a /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/libhts.a /usr/bin/install -p -m 644 bgzip.1 htsfile.1 tabix.1 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/man/man1 /usr/bin/install -p -m 644 faidx.5 sam.5 vcf.5 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/man/man5 /usr/bin/install -p -m 644 htslib-s3-plugin.7 /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/man/man7 + pushd /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64//usr/lib64 ~/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64 ~/build/BUILD/htslib-1.15.1 + chmod 755 libhts.so.1.15.1 + popd ~/build/BUILD/htslib-1.15.1 + find /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64 -name '*.la' -delete + rm -f /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64//usr/lib64/libhts.a + /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m -i --build-id-seed 1.15.1-1.el9 --unique-debug-suffix -1.15.1-1.el9.x86_64 --unique-debug-src-base htslib-1.15.1-1.el9.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/htslib-1.15.1 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/bin/bgzip explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/bin/htsfile extracting debug info from /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/bin/htsfile extracting debug info from /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/bin/bgzip explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/bin/tabix extracting debug info from /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/bin/tabix explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/libhts.so.1.15.1 extracting debug info from /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/lib64/libhts.so.1.15.1 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib/hfile_gcs.so extracting debug info from /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib/hfile_gcs.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib/hfile_libcurl.so extracting debug info from /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib/hfile_libcurl.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib/hfile_s3.so extracting debug info from /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib/hfile_s3.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib/hfile_s3_write.so extracting debug info from /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/libexec/htslib/hfile_s3_write.so original debug info size: 12532kB, size after compression: 11812kB /usr/lib/rpm/sepdebugcrcfix: Updated 8 CRC32s, 0 CRC32s did match. 5259 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/redhat/brp-python-bytecompile '' 1 0 + /usr/lib/rpm/brp-python-hardlink + /usr/lib/rpm/redhat/brp-mangle-shebangs Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.fxv6az + umask 022 + cd /builddir/build/BUILD + cd htslib-1.15.1 + make test gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/rANS_static_test.o htscodecs/tests/rANS_static_test.c gcc -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 -fvisibility=hidden -rdynamic -o htscodecs/tests/rans4x8 htscodecs/tests/rANS_static_test.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 -llzma -lbz2 -lz -lm -lm -lpthread cd htscodecs/tests && srcdir=. && export srcdir && ./rans4x8.test Testing rans4x8 -r -o0 on ./dat/q4 11674 Testing rans4x8 -r -o1 on ./dat/q4 10870 Testing rans4x8 -r -o0 on ./dat/q40+dir 50258 Testing rans4x8 -r -o1 on ./dat/q40+dir 50537 Testing rans4x8 -r -o0 on ./dat/q8 33099 Testing rans4x8 -r -o1 on ./dat/q8 31428 Testing rans4x8 -r -o0 on ./dat/qvar 32997 Testing rans4x8 -r -o1 on ./dat/qvar 32832 gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/rANS_static4x16pr_test.o htscodecs/tests/rANS_static4x16pr_test.c gcc -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 -fvisibility=hidden -rdynamic -o htscodecs/tests/rans4x16pr htscodecs/tests/rANS_static4x16pr_test.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 -llzma -lbz2 -lz -lm -lm -lpthread cd htscodecs/tests && srcdir=. && export srcdir && ./rans4x16.test Testing rans4x16 -r -o0 on ./dat/q4 11660 Testing rans4x16 -r -o1 on ./dat/q4 10848 Testing rans4x16 -r -o64 on ./dat/q4 12878 Testing rans4x16 -r -o65 on ./dat/q4 10672 Testing rans4x16 -r -o128 on ./dat/q4 10902 Testing rans4x16 -r -o129 on ./dat/q4 10890 Testing rans4x16 -r -o192 on ./dat/q4 11225 Testing rans4x16 -r -o193 on ./dat/q4 10825 Testing rans4x16 -r -o8 on ./dat/q4 11731 Testing rans4x16 -r -o9 on ./dat/q4 11111 Testing rans4x16 -r -o0 on ./dat/q40+dir 50247 Testing rans4x16 -r -o1 on ./dat/q40+dir 49449 Testing rans4x16 -r -o8 on ./dat/q40+dir 50072 Testing rans4x16 -r -o9 on ./dat/q40+dir 50072 Testing rans4x16 -r -o0 on ./dat/q8 33088 Testing rans4x16 -r -o1 on ./dat/q8 31372 Testing rans4x16 -r -o64 on ./dat/q8 33458 Testing rans4x16 -r -o65 on ./dat/q8 31025 Testing rans4x16 -r -o128 on ./dat/q8 32237 Testing rans4x16 -r -o129 on ./dat/q8 31258 Testing rans4x16 -r -o192 on ./dat/q8 32024 Testing rans4x16 -r -o193 on ./dat/q8 31146 Testing rans4x16 -r -o0 on ./dat/qvar 32987 Testing rans4x16 -r -o1 on ./dat/qvar 32261 gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/arith_dynamic_test.o htscodecs/tests/arith_dynamic_test.c gcc -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 -fvisibility=hidden -rdynamic -o htscodecs/tests/arith_dynamic htscodecs/tests/arith_dynamic_test.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 -llzma -lbz2 -lz -lm -lm -lpthread cd htscodecs/tests && srcdir=. && export srcdir && ./arith.test Testing arith_dynamic -r -o0 on ./dat/q4 11615 Testing arith_dynamic -r -o1 on ./dat/q4 10831 Testing arith_dynamic -r -o64 on ./dat/q4 13360 Testing arith_dynamic -r -o65 on ./dat/q4 10484 Testing arith_dynamic -r -o128 on ./dat/q4 10774 Testing arith_dynamic -r -o129 on ./dat/q4 10329 Testing arith_dynamic -r -o192 on ./dat/q4 11095 Testing arith_dynamic -r -o193 on ./dat/q4 10283 Testing arith_dynamic -r -o8 on ./dat/q4 11448 Testing arith_dynamic -r -o9 on ./dat/q4 11083 Testing arith_dynamic -r -o0 on ./dat/q40+dir 49949 Testing arith_dynamic -r -o1 on ./dat/q40+dir 49034 Testing arith_dynamic -r -o64 on ./dat/q40+dir 51242 Testing arith_dynamic -r -o65 on ./dat/q40+dir 49061 Testing arith_dynamic -r -o8 on ./dat/q40+dir 49820 Testing arith_dynamic -r -o9 on ./dat/q40+dir 49448 Testing arith_dynamic -r -o0 on ./dat/q8 32752 Testing arith_dynamic -r -o1 on ./dat/q8 31331 Testing arith_dynamic -r -o64 on ./dat/q8 35211 Testing arith_dynamic -r -o65 on ./dat/q8 30907 Testing arith_dynamic -r -o128 on ./dat/q8 32063 Testing arith_dynamic -r -o129 on ./dat/q8 31084 Testing arith_dynamic -r -o192 on ./dat/q8 32267 Testing arith_dynamic -r -o193 on ./dat/q8 30931 Testing arith_dynamic -r -o0 on ./dat/qvar 32597 Testing arith_dynamic -r -o1 on ./dat/qvar 31982 Testing arith_dynamic -r -o64 on ./dat/qvar 33237 Testing arith_dynamic -r -o65 on ./dat/qvar 31993 gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/tokenise_name3_test.o htscodecs/tests/tokenise_name3_test.c gcc -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 -fvisibility=hidden -rdynamic -o htscodecs/tests/tokenise_name3 htscodecs/tests/tokenise_name3_test.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 -llzma -lbz2 -lz -lm -lm -lpthread cd htscodecs/tests && srcdir=. && export srcdir && ./tok3.test Testing tokenise_name3 -r -1 on ./names/01.names 3392 Testing tokenise_name3 -r -3 on ./names/01.names 2471 Testing tokenise_name3 -r -5 on ./names/01.names 2283 Testing tokenise_name3 -r -7 on ./names/01.names 2234 Testing tokenise_name3 -r -9 on ./names/01.names 2234 Testing tokenise_name3 -r -11 on ./names/01.names 3151 Testing tokenise_name3 -r -13 on ./names/01.names 2424 Testing tokenise_name3 -r -15 on ./names/01.names 2061 Testing tokenise_name3 -r -17 on ./names/01.names 2051 Testing tokenise_name3 -r -19 on ./names/01.names 2049 Testing tokenise_name3 -r -1 on ./names/02.names 6633 Testing tokenise_name3 -r -3 on ./names/02.names 4983 Testing tokenise_name3 -r -5 on ./names/02.names 4942 Testing tokenise_name3 -r -7 on ./names/02.names 4922 Testing tokenise_name3 -r -9 on ./names/02.names 4918 Testing tokenise_name3 -r -11 on ./names/02.names 6087 Testing tokenise_name3 -r -13 on ./names/02.names 4797 Testing tokenise_name3 -r -15 on ./names/02.names 4714 Testing tokenise_name3 -r -17 on ./names/02.names 4695 Testing tokenise_name3 -r -19 on ./names/02.names 4695 Testing tokenise_name3 -r -1 on ./names/03.names 10557 Testing tokenise_name3 -r -3 on ./names/03.names 7822 Testing tokenise_name3 -r -5 on ./names/03.names 7557 Testing tokenise_name3 -r -7 on ./names/03.names 7521 Testing tokenise_name3 -r -9 on ./names/03.names 7521 Testing tokenise_name3 -r -11 on ./names/03.names 9294 Testing tokenise_name3 -r -13 on ./names/03.names 7291 Testing tokenise_name3 -r -15 on ./names/03.names 7125 Testing tokenise_name3 -r -17 on ./names/03.names 7069 Testing tokenise_name3 -r -19 on ./names/03.names 7068 Testing tokenise_name3 -r -1 on ./names/05.names 5098 Testing tokenise_name3 -r -3 on ./names/05.names 3600 Testing tokenise_name3 -r -5 on ./names/05.names 3551 Testing tokenise_name3 -r -7 on ./names/05.names 3534 Testing tokenise_name3 -r -9 on ./names/05.names 3534 Testing tokenise_name3 -r -11 on ./names/05.names 4648 Testing tokenise_name3 -r -13 on ./names/05.names 3405 Testing tokenise_name3 -r -15 on ./names/05.names 3381 Testing tokenise_name3 -r -17 on ./names/05.names 3377 Testing tokenise_name3 -r -19 on ./names/05.names 3377 Testing tokenise_name3 -r -1 on ./names/08.names 6841 Testing tokenise_name3 -r -3 on ./names/08.names 5291 Testing tokenise_name3 -r -5 on ./names/08.names 5206 Testing tokenise_name3 -r -7 on ./names/08.names 5160 Testing tokenise_name3 -r -9 on ./names/08.names 5160 Testing tokenise_name3 -r -11 on ./names/08.names 6374 Testing tokenise_name3 -r -13 on ./names/08.names 4895 Testing tokenise_name3 -r -15 on ./names/08.names 4851 Testing tokenise_name3 -r -17 on ./names/08.names 4805 Testing tokenise_name3 -r -19 on ./names/08.names 4805 Testing tokenise_name3 -r -1 on ./names/09.names 5339 Testing tokenise_name3 -r -3 on ./names/09.names 3598 Testing tokenise_name3 -r -5 on ./names/09.names 3527 Testing tokenise_name3 -r -7 on ./names/09.names 3493 Testing tokenise_name3 -r -9 on ./names/09.names 3493 Testing tokenise_name3 -r -11 on ./names/09.names 4861 Testing tokenise_name3 -r -13 on ./names/09.names 3427 Testing tokenise_name3 -r -15 on ./names/09.names 3391 Testing tokenise_name3 -r -17 on ./names/09.names 3366 Testing tokenise_name3 -r -19 on ./names/09.names 3366 Testing tokenise_name3 -r -1 on ./names/10.names 6458 Testing tokenise_name3 -r -3 on ./names/10.names 4843 Testing tokenise_name3 -r -5 on ./names/10.names 4799 Testing tokenise_name3 -r -7 on ./names/10.names 4746 Testing tokenise_name3 -r -9 on ./names/10.names 4744 Testing tokenise_name3 -r -11 on ./names/10.names 5785 Testing tokenise_name3 -r -13 on ./names/10.names 4567 Testing tokenise_name3 -r -15 on ./names/10.names 4492 Testing tokenise_name3 -r -17 on ./names/10.names 4472 Testing tokenise_name3 -r -19 on ./names/10.names 4472 Testing tokenise_name3 -r -1 on ./names/20.names 2511 Testing tokenise_name3 -r -3 on ./names/20.names 1701 Testing tokenise_name3 -r -5 on ./names/20.names 1659 Testing tokenise_name3 -r -7 on ./names/20.names 1632 Testing tokenise_name3 -r -9 on ./names/20.names 1632 Testing tokenise_name3 -r -11 on ./names/20.names 2319 Testing tokenise_name3 -r -13 on ./names/20.names 1629 Testing tokenise_name3 -r -15 on ./names/20.names 1605 Testing tokenise_name3 -r -17 on ./names/20.names 1600 Testing tokenise_name3 -r -19 on ./names/20.names 1600 Testing tokenise_name3 -r -1 on ./names/nv.names 6816 Testing tokenise_name3 -r -3 on ./names/nv.names 4989 Testing tokenise_name3 -r -5 on ./names/nv.names 4972 Testing tokenise_name3 -r -7 on ./names/nv.names 4937 Testing tokenise_name3 -r -9 on ./names/nv.names 4937 Testing tokenise_name3 -r -11 on ./names/nv.names 6084 Testing tokenise_name3 -r -13 on ./names/nv.names 4825 Testing tokenise_name3 -r -15 on ./names/nv.names 4771 Testing tokenise_name3 -r -17 on ./names/nv.names 4767 Testing tokenise_name3 -r -19 on ./names/nv.names 4767 Testing tokenise_name3 -r -1 on ./names/nv2.names 1181 Testing tokenise_name3 -r -3 on ./names/nv2.names 903 Testing tokenise_name3 -r -5 on ./names/nv2.names 879 Testing tokenise_name3 -r -7 on ./names/nv2.names 846 Testing tokenise_name3 -r -9 on ./names/nv2.names 846 Testing tokenise_name3 -r -11 on ./names/nv2.names 891 Testing tokenise_name3 -r -13 on ./names/nv2.names 836 Testing tokenise_name3 -r -15 on ./names/nv2.names 764 Testing tokenise_name3 -r -17 on ./names/nv2.names 747 Testing tokenise_name3 -r -19 on ./names/nv2.names 747 Testing tokenise_name3 -r -1 on ./names/rr.names 8788 Testing tokenise_name3 -r -3 on ./names/rr.names 6290 Testing tokenise_name3 -r -5 on ./names/rr.names 6252 Testing tokenise_name3 -r -7 on ./names/rr.names 6230 Testing tokenise_name3 -r -9 on ./names/rr.names 6230 Testing tokenise_name3 -r -11 on ./names/rr.names 8319 Testing tokenise_name3 -r -13 on ./names/rr.names 6066 Testing tokenise_name3 -r -15 on ./names/rr.names 5972 Testing tokenise_name3 -r -17 on ./names/rr.names 5963 Testing tokenise_name3 -r -19 on ./names/rr.names 5963 gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/fqzcomp_qual_test.o htscodecs/tests/fqzcomp_qual_test.c gcc -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 -fvisibility=hidden -rdynamic -o htscodecs/tests/fqzcomp_qual htscodecs/tests/fqzcomp_qual_test.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 -llzma -lbz2 -lz -lm -lm -lpthread cd htscodecs/tests && srcdir=. && export srcdir && ./fqzcomp.test Testing fqzcomp_qual -r -s 0 on ./dat/q4 9307 Testing fqzcomp_qual -r -s 1 on ./dat/q4 9618 Testing fqzcomp_qual -r -s 2 on ./dat/q4 9453 Testing fqzcomp_qual -r -s 3 on ./dat/q4 10481 Testing fqzcomp_qual -r -s 0 on ./dat/q40+dir 47674 Testing fqzcomp_qual -r -s 1 on ./dat/q40+dir 45016 Testing fqzcomp_qual -r -s 2 on ./dat/q40+dir 47760 Testing fqzcomp_qual -r -s 3 on ./dat/q40+dir 48583 Testing fqzcomp_qual -r -s 0 on ./dat/q8 30012 Testing fqzcomp_qual -r -s 1 on ./dat/q8 33742 Testing fqzcomp_qual -r -s 2 on ./dat/q8 30982 Testing fqzcomp_qual -r -s 3 on ./dat/q8 31709 Testing fqzcomp_qual -r -s 0 on ./dat/qvar 32868 Testing fqzcomp_qual -r -s 1 on ./dat/qvar 35007 Testing fqzcomp_qual -r -s 2 on ./dat/qvar 32400 Testing fqzcomp_qual -r -s 3 on ./dat/qvar 32073 gcc -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 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/varint_test.o htscodecs/tests/varint_test.c gcc -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 -fvisibility=hidden -rdynamic -o htscodecs/tests/varint htscodecs/tests/varint_test.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 -llzma -lbz2 -lz -lm -lm -lpthread cd htscodecs/tests && ./varint test/hts_endian test/test_expr test/test_kfunc test/test_kstring test/test_str2int test/fieldarith test/fieldarith.sam test/hfile HTS_PATH=. test/with-shlib.sh test/plugins-dlhts -g ./libhts.so HTS_PATH=. test/with-shlib.sh test/plugins-dlhts -l ./libhts.so test/test_bgzf test/bgziptest.txt test/test-parse-reg -t test/colons.bam Expected error: [E::hts_parse_region] Range is ambiguous. Use {chr1:100-200} or {chr1}:100-200 instead Expected error: [E::hts_parse_region] cd test/sam_filter && ./filter.sh filter.tst Range is ambiguous. Use {chr1:100-200,chr3} or {chr1}:100-200,chr3 instead Expected error: [E::hts_parse_region] Mismatching braces in "{chr1" Expected error: [E::hts_parse_region] Unexpected string "x" after region Expected error: [E::hts_parse_region] Unexpected string "y" after region Expected error: [E::hts_parse_region] Unexpected string "chr3" after region Testing sam_filter... PASS : $tv -i 'filter=qname =~ "\.1" && cigar =~ "D"' ../ce#1000.sam PASS : $tv -i 'filter=rname=="CHROMOSOME_II"' ../ce#5b.sam PASS : $tv -i 'filter=rname=~"CHROMOSOME_II"' ../ce#5b.sam PASS : $tv -i 'filter=cigar=~"D"' ../ce#1000.sam PASS : $tv -i 'filter=seq =~ "(AT){2}"' ../ce#1000.sam PASS : $tv -i 'filter=library=="x"' ../xx#rg.sam PASS : $tv -i 'filter=library!="x"' ../xx#rg.sam PASS : $tv -i 'filter=pos % 23 == 11' ../ce#1000.sam |egrep -cv '^@' PASS : $tv -i 'filter=qlen/(flag*mapq+pos)>5' ../ce#1000.sam |egrep -cv '^@' PASS : $tv -i 'filter=[NM]>=10 || [MD]=~"A.*A.*A"' -t4 ../ce#1000.sam |egrep -cv '^@' PASS : $tv -i 'filter=length(seq) != qlen' ../ce#5b.sam | egrep -cv '^@' PASS : $tv -i 'filter=min(qual) >= 20' ../ce#1000.sam | egrep -cv '^@' PASS : $tv -i 'filter=max(qual) <= 20' ../ce#1000.sam | egrep -cv '^@' PASS : $tv -i 'filter=avg(qual) >= 20 && avg(qual) <= 30' ../ce#1000.sam | egrep -cv '^@' Expected passes: 14 Unexpected passes: 0 Expected failures: 0 Unexpected failures: 0 cd test/tabix && ./test-tabix.sh tabix.tst Testing tabix... PASS : $tabix -f -p vcf vcf_file.tbi.tmp.vcf.gz PASS : $tabix vcf_file.tbi.tmp.vcf.gz 1:3000151-3000151 PASS : $tabix vcf_file.tbi.tmp.vcf.gz 2:3199812-3199812 PASS : $tabix -f -C -p vcf vcf_file.csi.tmp.vcf.gz PASS : $tabix vcf_file.csi.tmp.vcf.gz 1:3000151-3000151 PASS : $tabix vcf_file.csi.tmp.vcf.gz 2:3199812-3199812 PASS : $tabix -f -p vcf large_chr.tmp.vcf.gz (must exit non-zero) PASS : $tabix -f -C -p vcf large_chr.tmp.vcf.gz PASS : $tabix large_chr.tmp.vcf.gz chr20:1-2147483647 PASS : $tabix -f -p bed bed_file.tbi.tmp.bed.gz PASS : $tabix bed_file.tbi.tmp.bed.gz Y:100200-100200 PASS : $tabix -f -p gff gff_file.tbi.tmp.gff.gz PASS : $tabix gff_file.tbi.tmp.gff.gz X:2934832-2935190 PASS : $tabix --separate-regions bed_file.tbi.tmp.bed.gz X:1100-1400 Y:100000-100550 Z:100000-100005 Expected passes: 14 Unexpected passes: 0 Expected failures: 0 Unexpected failures: 0 cd test/mpileup && ./test-pileup.sh mpileup.tst Testing (m)pileup... PASS : $pileup mp_D.sam PASS : $pileup -m mp_D.sam PASS : $pileup mp_DI.sam PASS : $pileup -m mp_DI.sam PASS : $pileup mp_I.sam PASS : $pileup -m mp_I.sam PASS : $pileup mp_P.sam PASS : $pileup -m mp_P.sam PASS : $pileup mp_ID.sam PASS : $pileup -m mp_ID.sam PASS : $pileup mp_N.sam PASS : $pileup -m mp_N.sam PASS : $pileup mp_N2.sam PASS : $pileup -m mp_N2.sam PASS : $pileup c1#pad1.sam PASS : $pileup -m c1#pad1.sam PASS : $pileup c1#pad2.sam PASS : $pileup -m c1#pad2.sam PASS : $pileup c1#pad3.sam PASS : $pileup -m c1#pad3.sam PASS : $pileup -m small.bam Expected passes: 21 Unexpected passes: 0 Expected failures: 0 Unexpected failures: 0 cd test/fastq && ./test-fastq.sh Testing fastq support PASS : $tview minimal.fq PASS : $tview minimal.fa PASS : $tview multiline.fq PASS : $tview multiline.fa PASS : $tview single.fq PASS : $tview single.fa PASS : $tview -i fastq_aux single.fq PASS : $tview -i fastq_aux single.fa PASS : $tview interleaved.fq PASS : $tview interleaved.fa PASS : $tview -i fastq_aux interleaved.fq PASS : $tview -i fastq_aux interleaved.fa PASS : $tview -i fastq_casava interleaved_casava.fq PASS : $tview -i fastq_barcode=OX -i fastq_casava interleaved_casava.fq PASS : $tview -i fastq_casava interleaved_casava.fa PASS : $tview -i fastq_barcode=OX -i fastq_casava interleaved_casava.fa PASS : $tview -i fastq_casava filter_casava.fq PASS : $tview -i fastq_casava filter_casava.fa PASS : $tview -i fastq_aux r1.fq PASS : $tview -i fastq_aux r2.fq PASS : $tview -i fastq_aux r1.fa PASS : $tview -i fastq_aux r2.fa PASS : $tview -i fastq_name2 name2.fq PASS : $tview -i fastq_name2 name2.fa PASS : $tview -f minimal.sam PASS : $tview -F minimal.sam PASS : $tview -f -o fastq_aux single_aux.sam PASS : $tview -F -o fastq_aux single_aux.sam PASS : $tview -f -o fastq_aux -o fastq_rnum inter_aux.sam PASS : $tview -F -o fastq_aux -o fastq_rnum inter_aux.sam PASS : $tview -f -o fastq_casava inter_casava.sam PASS : $tview -f -o fastq_barcode=OX -o fastq_casava inter_casavaOX.sam PASS : $tview -F -o fastq_casava inter_casava.sam PASS : $tview -F -o fastq_barcode=OX -o fastq_casava inter_casavaOX.sam PASS : $tview -f -o fastq_casava filter_casava.sam PASS : $tview -F -o fastq_casava filter_casava.sam PASS : $tview -f -o fastq_aux -o fastq_rnum r1.sam PASS : $tview -f -o fastq_aux -o fastq_rnum r2.sam PASS : $tview -F -o fastq_aux -o fastq_rnum r1.sam PASS : $tview -F -o fastq_aux -o fastq_rnum r2.sam Expected passes: 40 Unexpected passes: 0 Expected failures: 0 Unexpected failures: 0 cd test/base_mods && ./base-mods.sh base-mods.tst Testing base-modifications... PASS : $test_mod MM-chebi.sam PASS : $test_mod MM-double.sam PASS : $test_mod MM-multi.sam PASS : $pileup_mod < MM-pileup.sam PASS : $pileup_mod < MM-pileup2.sam Expected passes: 5 Unexpected passes: 0 Expected failures: 0 Unexpected failures: 0 REF_PATH=: test/sam test/ce.fa test/faidx.fa test/fastqs.fq (Expect trailing 'x' message for " -1,001x") [W::hts_parse_decimal] Ignoring unknown characters after -1,001[x] (Expect trailing 'k' message for "1.5e+3k") [W::hts_parse_decimal] Ignoring unknown characters after 1.5e+3[k] (Expect dropped fraction message for "12.3456k") [W::hts_parse_decimal] Discarding fractional part of 12.3456k [W::hts_parse_decimal] Discarding fractional part of 12.3456k (Expect invalid numeric message for "A") [W::hts_parse_decimal] Invalid numeric value A[truncated] (Expect invalid numeric message for "G") [W::hts_parse_decimal] Invalid numeric value G[truncated] (Expect invalid numeric message for " +/-") [W::hts_parse_decimal] Invalid numeric value +/-[truncated] (Expect invalid numeric message for " -.e+9999") [W::hts_parse_decimal] Invalid numeric value -.e+9999[truncated] test/test-regidx cd test && REF_PATH=: ./test.pl ${TEST_OPTS:-} "my" variable @p masks earlier declaration in same scope at ./test.pl line 617. bgzip round-trip no threads: .. ok bgzip -b no threads: .. ok bgzip -b -I no threads: .. ok bgzip round-trip 4 threads: .. ok bgzip -b 4 threads: .. ok bgzip -b -I 4 threads: .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -b -m 14 -x /tmp/YBdzagSPfW/index.bam.csi /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.bam .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.bam .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -b -m 0 -x /tmp/YBdzagSPfW/index.bam.bai /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.bam .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -b /tmp/YBdzagSPfW/index.bam .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -z -m 14 -x /tmp/YBdzagSPfW/index.sam.gz.csi /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -z -m 0 -x /tmp/YBdzagSPfW/index.sam.gz.bai /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -b /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -z -m 14 -x /tmp/YBdzagSPfW/index.sam.gz.csi /builddir/build/BUILD/htslib-1.15.1/test/index_dos.sam > /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -z -m 0 -x /tmp/YBdzagSPfW/index.sam.gz.bai /builddir/build/BUILD/htslib-1.15.1/test/index_dos.sam > /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -b /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -C -x /tmp/YBdzagSPfW/index.cram.crai /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.cram .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index /tmp/YBdzagSPfW/index.cram .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -b -m 14 -x /tmp/YBdzagSPfW/index.bcf.csi /builddir/build/BUILD/htslib-1.15.1/test/index.vcf > /tmp/YBdzagSPfW/index.bcf .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.bcf .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -z -m 14 -x /tmp/YBdzagSPfW/index.vcf.gz.csi /builddir/build/BUILD/htslib-1.15.1/test/index.vcf > /tmp/YBdzagSPfW/index.vcf.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.vcf.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -l 0 -z -m 0 -x /tmp/YBdzagSPfW/index.vcf.gz.tbi /builddir/build/BUILD/htslib-1.15.1/test/index.vcf > /tmp/YBdzagSPfW/index.vcf.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -t /tmp/YBdzagSPfW/index.vcf.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/tabix /tmp/YBdzagSPfW/index.vcf.gz##idx##/tmp/YBdzagSPfW/index.vcf.gz.tbi 1:10000060-10000060 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view /tmp/YBdzagSPfW/index2.bam 1:1000000-1000000 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view /tmp/YBdzagSPfW/index2.bam 1:2000000-2000000 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view /tmp/YBdzagSPfW/index2.bam 2:1000000-1000000 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view /tmp/YBdzagSPfW/index2.bam 2:2000000-2000000 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -b -m 14 -x /tmp/YBdzagSPfW/index.bam.csi /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.bam .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.bam .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -b -m 0 -x /tmp/YBdzagSPfW/index.bam.bai /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.bam .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -b /tmp/YBdzagSPfW/index.bam .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 14 -x /tmp/YBdzagSPfW/index.sam.gz.csi /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 0 -x /tmp/YBdzagSPfW/index.sam.gz.bai /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -b /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 14 -x /tmp/YBdzagSPfW/index.sam.gz.csi /builddir/build/BUILD/htslib-1.15.1/test/index_dos.sam > /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 0 -x /tmp/YBdzagSPfW/index.sam.gz.bai /builddir/build/BUILD/htslib-1.15.1/test/index_dos.sam > /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -b /tmp/YBdzagSPfW/index.sam.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -C -x /tmp/YBdzagSPfW/index.cram.crai /builddir/build/BUILD/htslib-1.15.1/test/index.sam > /tmp/YBdzagSPfW/index.cram .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index /tmp/YBdzagSPfW/index.cram .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -b -m 14 -x /tmp/YBdzagSPfW/index.bcf.csi /builddir/build/BUILD/htslib-1.15.1/test/index.vcf > /tmp/YBdzagSPfW/index.bcf .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.bcf .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 14 -x /tmp/YBdzagSPfW/index.vcf.gz.csi /builddir/build/BUILD/htslib-1.15.1/test/index.vcf > /tmp/YBdzagSPfW/index.vcf.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c /tmp/YBdzagSPfW/index.vcf.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 0 -x /tmp/YBdzagSPfW/index.vcf.gz.tbi /builddir/build/BUILD/htslib-1.15.1/test/index.vcf > /tmp/YBdzagSPfW/index.vcf.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_index -t /tmp/YBdzagSPfW/index.vcf.gz .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/tabix /tmp/YBdzagSPfW/index.vcf.gz##idx##/tmp/YBdzagSPfW/index.vcf.gz.tbi 1:10000060-10000060 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view /tmp/YBdzagSPfW/index2.bam 1:1000000-1000000 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view /tmp/YBdzagSPfW/index2.bam 1:2000000-2000000 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view /tmp/YBdzagSPfW/index2.bam 2:1000000-1000000 .. ok test_index: /builddir/build/BUILD/htslib-1.15.1/test/test_view /tmp/YBdzagSPfW/index2.bam 2:2000000-2000000 .. ok test_view testing multi-ref CRAM modes: ./test_view -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=-1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram ./test_view multi_ref.tmp.cram > multi_ref.tmp.sam_ ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ ./test_view -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=0 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram ./test_view multi_ref.tmp.cram > multi_ref.tmp.sam_ ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ ./test_view -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram ./test_view multi_ref.tmp.cram > multi_ref.tmp.sam_ ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ .. ok test_view testing multi-ref CRAM modes: ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=-1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_ ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=0 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_ ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_ ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ .. ok test_view testing auxf#values.sam, ref auxf.fa: ./test_view -S -l0 -b auxf#values.sam > auxf#values.tmp.bam ./test_view auxf#values.tmp.bam > auxf#values.tmp.bam.sam_ ./compare_sam.pl auxf#values.sam auxf#values.tmp.bam.sam_ ./test_view -t auxf.fa -S -C -o VERSION=2.1 auxf#values.sam > auxf#values.tmp.cram ./test_view -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_ ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_ ./test_view -t auxf.fa -C -o VERSION=3.0 auxf#values.tmp.bam > auxf#values.tmp.bam.cram ./test_view auxf#values.tmp.bam.cram > auxf#values.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.bam.cram.bam.sam_ ./test_view -i reference=auxf.fa auxf#values_java.cram > auxf#values_java.tmp.sam_ ./compare_sam.pl -Baux -nomd auxf#values.sam auxf#values_java.tmp.sam_ .. ok test_view testing c1#bounds.sam, ref c1.fa: ./test_view -S -l0 -b c1#bounds.sam > c1#bounds.tmp.bam ./test_view c1#bounds.tmp.bam > c1#bounds.tmp.bam.sam_ ./compare_sam.pl c1#bounds.sam c1#bounds.tmp.bam.sam_ ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#bounds.sam > c1#bounds.tmp.cram ./test_view -D c1#bounds.tmp.cram > c1#bounds.tmp.cram.sam_ ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.cram.sam_ ./test_view -t c1.fa -C -o VERSION=3.0 c1#bounds.tmp.bam > c1#bounds.tmp.bam.cram ./test_view c1#bounds.tmp.bam.cram > c1#bounds.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#clip.sam, ref c1.fa: ./test_view -S -l0 -b c1#clip.sam > c1#clip.tmp.bam ./test_view c1#clip.tmp.bam > c1#clip.tmp.bam.sam_ ./compare_sam.pl c1#clip.sam c1#clip.tmp.bam.sam_ ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#clip.sam > c1#clip.tmp.cram ./test_view -D c1#clip.tmp.cram > c1#clip.tmp.cram.sam_ ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.cram.sam_ ./test_view -t c1.fa -C -o VERSION=3.0 c1#clip.tmp.bam > c1#clip.tmp.bam.cram ./test_view c1#clip.tmp.bam.cram > c1#clip.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#noseq.sam, ref c1.fa: ./test_view -S -l0 -b c1#noseq.sam > c1#noseq.tmp.bam ./test_view c1#noseq.tmp.bam > c1#noseq.tmp.bam.sam_ ./compare_sam.pl c1#noseq.sam c1#noseq.tmp.bam.sam_ ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#noseq.sam > c1#noseq.tmp.cram ./test_view -D c1#noseq.tmp.cram > c1#noseq.tmp.cram.sam_ ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.cram.sam_ ./test_view -t c1.fa -C -o VERSION=3.0 c1#noseq.tmp.bam > c1#noseq.tmp.bam.cram ./test_view c1#noseq.tmp.bam.cram > c1#noseq.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#pad1.sam, ref c1.fa: ./test_view -S -l0 -b c1#pad1.sam > c1#pad1.tmp.bam ./test_view c1#pad1.tmp.bam > c1#pad1.tmp.bam.sam_ ./compare_sam.pl c1#pad1.sam c1#pad1.tmp.bam.sam_ ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#pad1.sam > c1#pad1.tmp.cram ./test_view -D c1#pad1.tmp.cram > c1#pad1.tmp.cram.sam_ ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.cram.sam_ ./test_view -t c1.fa -C -o VERSION=3.0 c1#pad1.tmp.bam > c1#pad1.tmp.bam.cram ./test_view c1#pad1.tmp.bam.cram > c1#pad1.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#pad2.sam, ref c1.fa: ./test_view -S -l0 -b c1#pad2.sam > c1#pad2.tmp.bam ./test_view c1#pad2.tmp.bam > c1#pad2.tmp.bam.sam_ ./compare_sam.pl c1#pad2.sam c1#pad2.tmp.bam.sam_ ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#pad2.sam > c1#pad2.tmp.cram ./test_view -D c1#pad2.tmp.cram > c1#pad2.tmp.cram.sam_ ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.cram.sam_ ./test_view -t c1.fa -C -o VERSION=3.0 c1#pad2.tmp.bam > c1#pad2.tmp.bam.cram ./test_view c1#pad2.tmp.bam.cram > c1#pad2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#pad3.sam, ref c1.fa: ./test_view -S -l0 -b c1#pad3.sam > c1#pad3.tmp.bam ./test_view c1#pad3.tmp.bam > c1#pad3.tmp.bam.sam_ ./compare_sam.pl c1#pad3.sam c1#pad3.tmp.bam.sam_ ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#pad3.sam > c1#pad3.tmp.cram ./test_view -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_ ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_ ./test_view -t c1.fa -C -o VERSION=3.0 c1#pad3.tmp.bam > c1#pad3.tmp.bam.cram ./test_view c1#pad3.tmp.bam.cram > c1#pad3.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#unknown.sam, ref c1.fa: ./test_view -S -l0 -b c1#unknown.sam > c1#unknown.tmp.bam ./test_view c1#unknown.tmp.bam > c1#unknown.tmp.bam.sam_ ./compare_sam.pl c1#unknown.sam c1#unknown.tmp.bam.sam_ ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#unknown.sam > c1#unknown.tmp.cram ./test_view -D c1#unknown.tmp.cram > c1#unknown.tmp.cram.sam_ ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.cram.sam_ ./test_view -t c1.fa -C -o VERSION=3.0 c1#unknown.tmp.bam > c1#unknown.tmp.bam.cram ./test_view c1#unknown.tmp.bam.cram > c1#unknown.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.bam.cram.bam.sam_ .. ok test_view testing c2#pad.sam, ref c2.fa: ./test_view -S -l0 -b c2#pad.sam > c2#pad.tmp.bam ./test_view c2#pad.tmp.bam > c2#pad.tmp.bam.sam_ ./compare_sam.pl c2#pad.sam c2#pad.tmp.bam.sam_ ./test_view -t c2.fa -S -C -o VERSION=2.1 c2#pad.sam > c2#pad.tmp.cram ./test_view -D c2#pad.tmp.cram > c2#pad.tmp.cram.sam_ ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.cram.sam_ ./test_view -t c2.fa -C -o VERSION=3.0 c2#pad.tmp.bam > c2#pad.tmp.bam.cram ./test_view c2#pad.tmp.bam.cram > c2#pad.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#1.sam, ref ce.fa: ./test_view -S -l0 -b ce#1.sam > ce#1.tmp.bam ./test_view ce#1.tmp.bam > ce#1.tmp.bam.sam_ ./compare_sam.pl ce#1.sam ce#1.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#1.sam > ce#1.tmp.cram ./test_view -D ce#1.tmp.cram > ce#1.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#1.tmp.bam > ce#1.tmp.bam.cram ./test_view ce#1.tmp.bam.cram > ce#1.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#1000.sam, ref ce.fa: ./test_view -S -b ce#1000.sam > ce#1000.tmp.bam ./test_view ce#1000.tmp.bam > ce#1000.tmp.bam.sam_ ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_ ./test_view -S -l0 -b ce#1000.sam > ce#1000.tmp.bam ./test_view ce#1000.tmp.bam > ce#1000.tmp.bam.sam_ ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#1000.sam > ce#1000.tmp.cram ./test_view -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ ./test_view -t ce.fa -S -l0 -C -o VERSION=3.0 ce#1000.sam > ce#1000.tmp.cram ./test_view -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#1000.tmp.bam > ce#1000.tmp.bam.cram ./test_view ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#2.sam, ref ce.fa: ./test_view -S -l0 -b ce#2.sam > ce#2.tmp.bam ./test_view ce#2.tmp.bam > ce#2.tmp.bam.sam_ ./compare_sam.pl ce#2.sam ce#2.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#2.sam > ce#2.tmp.cram ./test_view -D ce#2.tmp.cram > ce#2.tmp.cram.sam_ ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#2.tmp.bam > ce#2.tmp.bam.cram ./test_view ce#2.tmp.bam.cram > ce#2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#5.sam, ref ce.fa: ./test_view -S -l0 -b ce#5.sam > ce#5.tmp.bam ./test_view ce#5.tmp.bam > ce#5.tmp.bam.sam_ ./compare_sam.pl ce#5.sam ce#5.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#5.sam > ce#5.tmp.cram ./test_view -D ce#5.tmp.cram > ce#5.tmp.cram.sam_ ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#5.tmp.bam > ce#5.tmp.bam.cram ./test_view ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#5b.sam, ref ce.fa: ./test_view -S -l0 -b ce#5b.sam > ce#5b.tmp.bam ./test_view ce#5b.tmp.bam > ce#5b.tmp.bam.sam_ ./compare_sam.pl ce#5b.sam ce#5b.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#5b.sam > ce#5b.tmp.cram ./test_view -D ce#5b.tmp.cram > ce#5b.tmp.cram.sam_ ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#5b.tmp.bam > ce#5b.tmp.bam.cram ./test_view ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.bam.sam_ ./test_view -i reference=ce.fa ce#5b_java.cram > ce#5b_java.tmp.sam_ ./compare_sam.pl -Baux -nomd ce#5b.sam ce#5b_java.tmp.sam_ .. ok test_view testing ce#large_seq.sam, ref ce.fa: ./test_view -S -l0 -b ce#large_seq.sam > ce#large_seq.tmp.bam ./test_view ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.sam_ ./compare_sam.pl ce#large_seq.sam ce#large_seq.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#large_seq.sam > ce#large_seq.tmp.cram ./test_view -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.cram ./test_view ce#large_seq.tmp.bam.cram > ce#large_seq.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#supp.sam, ref ce.fa: ./test_view -S -l0 -b ce#supp.sam > ce#supp.tmp.bam ./test_view ce#supp.tmp.bam > ce#supp.tmp.bam.sam_ ./compare_sam.pl ce#supp.sam ce#supp.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#supp.sam > ce#supp.tmp.cram ./test_view -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_ ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#supp.tmp.bam > ce#supp.tmp.bam.cram ./test_view ce#supp.tmp.bam.cram > ce#supp.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#tag_depadded.sam, ref ce.fa: ./test_view -S -l0 -b ce#tag_depadded.sam > ce#tag_depadded.tmp.bam ./test_view ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.sam_ ./compare_sam.pl ce#tag_depadded.sam ce#tag_depadded.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#tag_depadded.sam > ce#tag_depadded.tmp.cram ./test_view -D ce#tag_depadded.tmp.cram > ce#tag_depadded.tmp.cram.sam_ ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.cram ./test_view ce#tag_depadded.tmp.bam.cram > ce#tag_depadded.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#tag_padded.sam, ref ce.fa: ./test_view -S -l0 -b ce#tag_padded.sam > ce#tag_padded.tmp.bam ./test_view ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.sam_ ./compare_sam.pl ce#tag_padded.sam ce#tag_padded.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#tag_padded.sam > ce#tag_padded.tmp.cram ./test_view -D ce#tag_padded.tmp.cram > ce#tag_padded.tmp.cram.sam_ ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.cram ./test_view ce#tag_padded.tmp.bam.cram > ce#tag_padded.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#unmap.sam, ref ce.fa: ./test_view -S -l0 -b ce#unmap.sam > ce#unmap.tmp.bam ./test_view ce#unmap.tmp.bam > ce#unmap.tmp.bam.sam_ ./compare_sam.pl ce#unmap.sam ce#unmap.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#unmap.sam > ce#unmap.tmp.cram ./test_view -D ce#unmap.tmp.cram > ce#unmap.tmp.cram.sam_ ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#unmap.tmp.bam > ce#unmap.tmp.bam.cram ./test_view ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#unmap1.sam, ref ce.fa: ./test_view -S -l0 -b ce#unmap1.sam > ce#unmap1.tmp.bam ./test_view ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.sam_ ./compare_sam.pl ce#unmap1.sam ce#unmap1.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#unmap1.sam > ce#unmap1.tmp.cram ./test_view -D ce#unmap1.tmp.cram > ce#unmap1.tmp.cram.sam_ ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.cram ./test_view ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#unmap2.sam, ref ce.fa: ./test_view -S -l0 -b ce#unmap2.sam > ce#unmap2.tmp.bam ./test_view ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.sam_ ./compare_sam.pl ce#unmap2.sam ce#unmap2.tmp.bam.sam_ ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#unmap2.sam > ce#unmap2.tmp.cram ./test_view -D ce#unmap2.tmp.cram > ce#unmap2.tmp.cram.sam_ ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.cram.sam_ ./test_view -t ce.fa -C -o VERSION=3.0 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.cram ./test_view ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.bam.sam_ .. ok test_view testing md#1.sam, ref md.fa: ./test_view -S -l0 -b md#1.sam > md#1.tmp.bam ./test_view md#1.tmp.bam > md#1.tmp.bam.sam_ ./compare_sam.pl md#1.sam md#1.tmp.bam.sam_ ./test_view -t md.fa -S -C -o VERSION=2.1 md#1.sam > md#1.tmp.cram ./test_view -D md#1.tmp.cram > md#1.tmp.cram.sam_ ./compare_sam.pl md#1.sam md#1.tmp.cram.sam_ ./test_view -t md.fa -C -o VERSION=3.0 md#1.tmp.bam > md#1.tmp.bam.cram ./test_view md#1.tmp.bam.cram > md#1.tmp.bam.cram.bam.sam_ ./compare_sam.pl md#1.sam md#1.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#blank.sam, ref xx.fa: ./test_view -S -l0 -b xx#blank.sam > xx#blank.tmp.bam ./test_view xx#blank.tmp.bam > xx#blank.tmp.bam.sam_ ./compare_sam.pl xx#blank.sam xx#blank.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#blank.sam > xx#blank.tmp.cram ./test_view -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_ ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#blank.tmp.bam > xx#blank.tmp.bam.cram ./test_view xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#large_aux.sam, ref xx.fa: ./test_view -S -l0 -b xx#large_aux.sam > xx#large_aux.tmp.bam ./test_view xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.sam_ ./compare_sam.pl xx#large_aux.sam xx#large_aux.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#large_aux.sam > xx#large_aux.tmp.cram ./test_view -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.cram ./test_view xx#large_aux.tmp.bam.cram > xx#large_aux.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.bam.cram.bam.sam_ ./test_view -i reference=xx.fa xx#large_aux_java.cram > xx#large_aux_java.tmp.sam_ [W::sanitise_SQ_lines] Header @SQ length mismatch for ref xx, 30 vs 20 ./compare_sam.pl -Baux -nomd xx#large_aux.sam xx#large_aux_java.tmp.sam_ .. ok test_view testing xx#large_aux2.sam, ref xx.fa: ./test_view -S -l0 -b xx#large_aux2.sam > xx#large_aux2.tmp.bam ./test_view xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.sam_ ./compare_sam.pl xx#large_aux2.sam xx#large_aux2.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#large_aux2.sam > xx#large_aux2.tmp.cram ./test_view -D xx#large_aux2.tmp.cram > xx#large_aux2.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.cram ./test_view xx#large_aux2.tmp.bam.cram > xx#large_aux2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#MD.sam, ref xx.fa: ./test_view -S -l0 -b xx#MD.sam > xx#MD.tmp.bam ./test_view xx#MD.tmp.bam > xx#MD.tmp.bam.sam_ ./compare_sam.pl xx#MD.sam xx#MD.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#MD.sam > xx#MD.tmp.cram ./test_view -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#MD.tmp.bam > xx#MD.tmp.bam.cram ./test_view xx#MD.tmp.bam.cram > xx#MD.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#MD2.sam, ref xx.fa: ./test_view -S -l0 -b xx#MD2.sam > xx#MD2.tmp.bam ./test_view xx#MD2.tmp.bam > xx#MD2.tmp.bam.sam_ ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#MD2.sam > xx#MD2.tmp.cram ./test_view -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#MD2.tmp.bam > xx#MD2.tmp.bam.cram ./test_view xx#MD2.tmp.bam.cram > xx#MD2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#minimal.sam, ref xx.fa: ./test_view -S -l0 -b xx#minimal.sam > xx#minimal.tmp.bam ./test_view xx#minimal.tmp.bam > xx#minimal.tmp.bam.sam_ ./compare_sam.pl xx#minimal.sam xx#minimal.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#minimal.sam > xx#minimal.tmp.cram ./test_view -D xx#minimal.tmp.cram > xx#minimal.tmp.cram.sam_ ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#minimal.tmp.bam > xx#minimal.tmp.bam.cram ./test_view xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#pair.sam, ref xx.fa: ./test_view -S -l0 -b xx#pair.sam > xx#pair.tmp.bam ./test_view xx#pair.tmp.bam > xx#pair.tmp.bam.sam_ ./compare_sam.pl xx#pair.sam xx#pair.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#pair.sam > xx#pair.tmp.cram ./test_view -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_ ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#pair.tmp.bam > xx#pair.tmp.bam.cram ./test_view xx#pair.tmp.bam.cram > xx#pair.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#repeated.sam, ref xx.fa: ./test_view -S -l0 -b xx#repeated.sam > xx#repeated.tmp.bam ./test_view xx#repeated.tmp.bam > xx#repeated.tmp.bam.sam_ ./compare_sam.pl xx#repeated.sam xx#repeated.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#repeated.sam > xx#repeated.tmp.cram ./test_view -D xx#repeated.tmp.cram > xx#repeated.tmp.cram.sam_ ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#repeated.tmp.bam > xx#repeated.tmp.bam.cram ./test_view xx#repeated.tmp.bam.cram > xx#repeated.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#rg.sam, ref xx.fa: ./test_view -S -l0 -b xx#rg.sam > xx#rg.tmp.bam ./test_view xx#rg.tmp.bam > xx#rg.tmp.bam.sam_ ./compare_sam.pl xx#rg.sam xx#rg.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#rg.sam > xx#rg.tmp.cram ./test_view -D xx#rg.tmp.cram > xx#rg.tmp.cram.sam_ ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#rg.tmp.bam > xx#rg.tmp.bam.cram ./test_view xx#rg.tmp.bam.cram > xx#rg.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#tlen.sam, ref xx.fa: ./test_view -S -l0 -b xx#tlen.sam > xx#tlen.tmp.bam ./test_view xx#tlen.tmp.bam > xx#tlen.tmp.bam.sam_ ./compare_sam.pl xx#tlen.sam xx#tlen.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#tlen.sam > xx#tlen.tmp.cram ./test_view -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_ ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#tlen.tmp.bam > xx#tlen.tmp.bam.cram ./test_view xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#tlen2.sam, ref xx.fa: ./test_view -S -l0 -b xx#tlen2.sam > xx#tlen2.tmp.bam ./test_view xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.sam_ ./compare_sam.pl xx#tlen2.sam xx#tlen2.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#tlen2.sam > xx#tlen2.tmp.cram ./test_view -D xx#tlen2.tmp.cram > xx#tlen2.tmp.cram.sam_ ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.cram ./test_view xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#triplet.sam, ref xx.fa: ./test_view -S -l0 -b xx#triplet.sam > xx#triplet.tmp.bam ./test_view xx#triplet.tmp.bam > xx#triplet.tmp.bam.sam_ ./compare_sam.pl xx#triplet.sam xx#triplet.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#triplet.sam > xx#triplet.tmp.cram ./test_view -D xx#triplet.tmp.cram > xx#triplet.tmp.cram.sam_ ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#triplet.tmp.bam > xx#triplet.tmp.bam.cram ./test_view xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#unsorted.sam, ref xx.fa: ./test_view -S -l0 -b xx#unsorted.sam > xx#unsorted.tmp.bam ./test_view xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.sam_ ./compare_sam.pl xx#unsorted.sam xx#unsorted.tmp.bam.sam_ ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#unsorted.sam > xx#unsorted.tmp.cram ./test_view -D xx#unsorted.tmp.cram > xx#unsorted.tmp.cram.sam_ ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.cram.sam_ ./test_view -t xx.fa -C -o VERSION=3.0 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.cram ./test_view xx#unsorted.tmp.bam.cram > xx#unsorted.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.bam.cram.bam.sam_ .. ok test_view testing region queries: ./test_view -i reference=ce.fa range.cram CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp ./compare_sam.pl range.tmp range.out ./test_view range.bam CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp ./compare_sam.pl range.tmp range.out .. ok test_view testing BAM files with absent @SQ lines: ./test_view -p no_hdr_sq_1.tmp.sam no_hdr_sq_1.bam ./compare_sam.pl no_hdr_sq_1.tmp.sam no_hdr_sq_1.expected.sam ./test_view -p no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.bam CHROMOSOME_I ./compare_sam.pl no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.expected.sam .. ok test_view testing large (> 2Gbases) positions: ./test_view -z -p longrefs/longref.tmp.sam.gz -x longrefs/longref.tmp.sam.gz.csi.otf -m 14 longrefs/longref.sam ./test_view -p longrefs/longref.tmp.sam_ longrefs/longref.tmp.sam.gz ./compare_sam.pl longrefs/longref.sam longrefs/longref.tmp.sam_ test_view: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c longrefs/longref.tmp.sam.gz .. ok ./test_view -p longrefs/longref_itr.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 ./compare_sam.pl longrefs/longref_itr.expected.sam longrefs/longref_itr.tmp.sam ./test_view -M -p longrefs/longref_multi.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 CHROMOSOME_I:10000000100-10000000110 ./compare_sam.pl longrefs/longref_multi.expected.sam longrefs/longref_multi.tmp.sam .. ok test_view testing auxf#values.sam, ref auxf.fa: ./test_view -@4 -S -l0 -b auxf#values.sam > auxf#values.tmp.bam ./test_view -@4 auxf#values.tmp.bam > auxf#values.tmp.bam.sam_ ./compare_sam.pl auxf#values.sam auxf#values.tmp.bam.sam_ ./test_view -@4 -t auxf.fa -S -C -o VERSION=2.1 auxf#values.sam > auxf#values.tmp.cram ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_ ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_ ./test_view -@4 -t auxf.fa -C -o VERSION=3.0 auxf#values.tmp.bam > auxf#values.tmp.bam.cram ./test_view -@4 auxf#values.tmp.bam.cram > auxf#values.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.bam.cram.bam.sam_ ./test_view -@4 -t auxf.fa -S -l7 -C -o VERSION=3.1 -o archive auxf#values.sam > auxf#values.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_ ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_ ./test_view -@4 -t auxf.fa -S -l7 -C -o VERSION=4.0 -o archive auxf#values.sam > auxf#values.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_ ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_ ./test_view -@4 -i reference=auxf.fa auxf#values_java.cram > auxf#values_java.tmp.sam_ ./compare_sam.pl -Baux -nomd auxf#values.sam auxf#values_java.tmp.sam_ .. ok test_view testing c1#bounds.sam, ref c1.fa: ./test_view -@4 -S -l0 -b c1#bounds.sam > c1#bounds.tmp.bam ./test_view -@4 c1#bounds.tmp.bam > c1#bounds.tmp.bam.sam_ ./compare_sam.pl c1#bounds.sam c1#bounds.tmp.bam.sam_ ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#bounds.sam > c1#bounds.tmp.cram ./test_view -@4 -D c1#bounds.tmp.cram > c1#bounds.tmp.cram.sam_ ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.cram.sam_ ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#bounds.tmp.bam > c1#bounds.tmp.bam.cram ./test_view -@4 c1#bounds.tmp.bam.cram > c1#bounds.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#clip.sam, ref c1.fa: ./test_view -@4 -S -l0 -b c1#clip.sam > c1#clip.tmp.bam ./test_view -@4 c1#clip.tmp.bam > c1#clip.tmp.bam.sam_ ./compare_sam.pl c1#clip.sam c1#clip.tmp.bam.sam_ ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#clip.sam > c1#clip.tmp.cram ./test_view -@4 -D c1#clip.tmp.cram > c1#clip.tmp.cram.sam_ ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.cram.sam_ ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#clip.tmp.bam > c1#clip.tmp.bam.cram ./test_view -@4 c1#clip.tmp.bam.cram > c1#clip.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#noseq.sam, ref c1.fa: ./test_view -@4 -S -l0 -b c1#noseq.sam > c1#noseq.tmp.bam ./test_view -@4 c1#noseq.tmp.bam > c1#noseq.tmp.bam.sam_ ./compare_sam.pl c1#noseq.sam c1#noseq.tmp.bam.sam_ ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#noseq.sam > c1#noseq.tmp.cram ./test_view -@4 -D c1#noseq.tmp.cram > c1#noseq.tmp.cram.sam_ ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.cram.sam_ ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#noseq.tmp.bam > c1#noseq.tmp.bam.cram ./test_view -@4 c1#noseq.tmp.bam.cram > c1#noseq.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#pad1.sam, ref c1.fa: ./test_view -@4 -S -l0 -b c1#pad1.sam > c1#pad1.tmp.bam ./test_view -@4 c1#pad1.tmp.bam > c1#pad1.tmp.bam.sam_ ./compare_sam.pl c1#pad1.sam c1#pad1.tmp.bam.sam_ ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad1.sam > c1#pad1.tmp.cram ./test_view -@4 -D c1#pad1.tmp.cram > c1#pad1.tmp.cram.sam_ ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.cram.sam_ ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad1.tmp.bam > c1#pad1.tmp.bam.cram ./test_view -@4 c1#pad1.tmp.bam.cram > c1#pad1.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#pad2.sam, ref c1.fa: ./test_view -@4 -S -l0 -b c1#pad2.sam > c1#pad2.tmp.bam ./test_view -@4 c1#pad2.tmp.bam > c1#pad2.tmp.bam.sam_ ./compare_sam.pl c1#pad2.sam c1#pad2.tmp.bam.sam_ ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad2.sam > c1#pad2.tmp.cram ./test_view -@4 -D c1#pad2.tmp.cram > c1#pad2.tmp.cram.sam_ ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.cram.sam_ ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad2.tmp.bam > c1#pad2.tmp.bam.cram ./test_view -@4 c1#pad2.tmp.bam.cram > c1#pad2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.bam.cram.bam.sam_ .. ok test_view testing c1#pad3.sam, ref c1.fa: ./test_view -@4 -S -l0 -b c1#pad3.sam > c1#pad3.tmp.bam ./test_view -@4 c1#pad3.tmp.bam > c1#pad3.tmp.bam.sam_ ./compare_sam.pl c1#pad3.sam c1#pad3.tmp.bam.sam_ ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad3.sam > c1#pad3.tmp.cram ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_ ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_ ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad3.tmp.bam > c1#pad3.tmp.bam.cram ./test_view -@4 c1#pad3.tmp.bam.cram > c1#pad3.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.bam.cram.bam.sam_ ./test_view -@4 -t c1.fa -S -l7 -C -o VERSION=3.1 -o archive c1#pad3.sam > c1#pad3.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_ ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_ ./test_view -@4 -t c1.fa -S -l7 -C -o VERSION=4.0 -o archive c1#pad3.sam > c1#pad3.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_ ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_ .. ok test_view testing c1#unknown.sam, ref c1.fa: ./test_view -@4 -S -l0 -b c1#unknown.sam > c1#unknown.tmp.bam ./test_view -@4 c1#unknown.tmp.bam > c1#unknown.tmp.bam.sam_ ./compare_sam.pl c1#unknown.sam c1#unknown.tmp.bam.sam_ ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#unknown.sam > c1#unknown.tmp.cram ./test_view -@4 -D c1#unknown.tmp.cram > c1#unknown.tmp.cram.sam_ ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.cram.sam_ ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#unknown.tmp.bam > c1#unknown.tmp.bam.cram ./test_view -@4 c1#unknown.tmp.bam.cram > c1#unknown.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.bam.cram.bam.sam_ .. ok test_view testing c2#pad.sam, ref c2.fa: ./test_view -@4 -S -l0 -b c2#pad.sam > c2#pad.tmp.bam ./test_view -@4 c2#pad.tmp.bam > c2#pad.tmp.bam.sam_ ./compare_sam.pl c2#pad.sam c2#pad.tmp.bam.sam_ ./test_view -@4 -t c2.fa -S -C -o VERSION=2.1 c2#pad.sam > c2#pad.tmp.cram ./test_view -@4 -D c2#pad.tmp.cram > c2#pad.tmp.cram.sam_ ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.cram.sam_ ./test_view -@4 -t c2.fa -C -o VERSION=3.0 c2#pad.tmp.bam > c2#pad.tmp.bam.cram ./test_view -@4 c2#pad.tmp.bam.cram > c2#pad.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#1.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#1.sam > ce#1.tmp.bam ./test_view -@4 ce#1.tmp.bam > ce#1.tmp.bam.sam_ ./compare_sam.pl ce#1.sam ce#1.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#1.sam > ce#1.tmp.cram ./test_view -@4 -D ce#1.tmp.cram > ce#1.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#1.tmp.bam > ce#1.tmp.bam.cram ./test_view -@4 ce#1.tmp.bam.cram > ce#1.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#1000.sam, ref ce.fa: ./test_view -@4 -S -b ce#1000.sam > ce#1000.tmp.bam ./test_view -@4 ce#1000.tmp.bam > ce#1000.tmp.bam.sam_ ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_ ./test_view -@4 -S -l0 -b ce#1000.sam > ce#1000.tmp.bam ./test_view -@4 ce#1000.tmp.bam > ce#1000.tmp.bam.sam_ ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#1000.sam > ce#1000.tmp.cram ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l0 -C -o VERSION=3.0 ce#1000.sam > ce#1000.tmp.cram ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#1000.tmp.bam > ce#1000.tmp.bam.cram ./test_view -@4 ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.bam.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.ms ./test_view -@4 ce#1000.tmp.bam.cram.ms > ce#1000.tmp.bam.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o fast ce#1000.sam > ce#1000.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o normal ce#1000.sam > ce#1000.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o small ce#1000.sam > ce#1000.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#1000.sam > ce#1000.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#1000.sam > ce#1000.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ .. ok test_view testing ce#2.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#2.sam > ce#2.tmp.bam ./test_view -@4 ce#2.tmp.bam > ce#2.tmp.bam.sam_ ./compare_sam.pl ce#2.sam ce#2.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#2.sam > ce#2.tmp.cram ./test_view -@4 -D ce#2.tmp.cram > ce#2.tmp.cram.sam_ ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#2.tmp.bam > ce#2.tmp.bam.cram ./test_view -@4 ce#2.tmp.bam.cram > ce#2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#5.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#5.sam > ce#5.tmp.bam ./test_view -@4 ce#5.tmp.bam > ce#5.tmp.bam.sam_ ./compare_sam.pl ce#5.sam ce#5.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#5.sam > ce#5.tmp.cram ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_ ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#5.tmp.bam > ce#5.tmp.bam.cram ./test_view -@4 ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.bam.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.ms ./test_view -@4 ce#5.tmp.bam.cram.ms > ce#5.tmp.bam.cram.sam_ ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#5.sam > ce#5.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_ ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#5.sam > ce#5.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_ ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_ .. ok test_view testing ce#5b.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#5b.sam > ce#5b.tmp.bam ./test_view -@4 ce#5b.tmp.bam > ce#5b.tmp.bam.sam_ ./compare_sam.pl ce#5b.sam ce#5b.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#5b.sam > ce#5b.tmp.cram ./test_view -@4 -D ce#5b.tmp.cram > ce#5b.tmp.cram.sam_ ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#5b.tmp.bam > ce#5b.tmp.bam.cram ./test_view -@4 ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.bam.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.ms ./test_view -@4 ce#5b.tmp.bam.cram.ms > ce#5b.tmp.bam.cram.sam_ ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.sam_ ./test_view -@4 -i reference=ce.fa ce#5b_java.cram > ce#5b_java.tmp.sam_ ./compare_sam.pl -Baux -nomd ce#5b.sam ce#5b_java.tmp.sam_ .. ok test_view testing ce#large_seq.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#large_seq.sam > ce#large_seq.tmp.bam ./test_view -@4 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.sam_ ./compare_sam.pl ce#large_seq.sam ce#large_seq.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#large_seq.sam > ce#large_seq.tmp.cram ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.cram ./test_view -@4 ce#large_seq.tmp.bam.cram > ce#large_seq.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.bam.cram.bam.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#large_seq.sam > ce#large_seq.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o fast ce#large_seq.sam > ce#large_seq.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o normal ce#large_seq.sam > ce#large_seq.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o small ce#large_seq.sam > ce#large_seq.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#large_seq.sam > ce#large_seq.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ .. ok test_view testing ce#supp.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#supp.sam > ce#supp.tmp.bam ./test_view -@4 ce#supp.tmp.bam > ce#supp.tmp.bam.sam_ ./compare_sam.pl ce#supp.sam ce#supp.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#supp.sam > ce#supp.tmp.cram ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_ ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#supp.tmp.bam > ce#supp.tmp.bam.cram ./test_view -@4 ce#supp.tmp.bam.cram > ce#supp.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.bam.cram.bam.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#supp.sam > ce#supp.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_ ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_ ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#supp.sam > ce#supp.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_ ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_ .. ok test_view testing ce#tag_depadded.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#tag_depadded.sam > ce#tag_depadded.tmp.bam ./test_view -@4 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.sam_ ./compare_sam.pl ce#tag_depadded.sam ce#tag_depadded.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#tag_depadded.sam > ce#tag_depadded.tmp.cram ./test_view -@4 -D ce#tag_depadded.tmp.cram > ce#tag_depadded.tmp.cram.sam_ ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.cram ./test_view -@4 ce#tag_depadded.tmp.bam.cram > ce#tag_depadded.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#tag_padded.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#tag_padded.sam > ce#tag_padded.tmp.bam ./test_view -@4 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.sam_ ./compare_sam.pl ce#tag_padded.sam ce#tag_padded.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#tag_padded.sam > ce#tag_padded.tmp.cram ./test_view -@4 -D ce#tag_padded.tmp.cram > ce#tag_padded.tmp.cram.sam_ ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.cram ./test_view -@4 ce#tag_padded.tmp.bam.cram > ce#tag_padded.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.bam.cram.bam.sam_ .. ok test_view testing ce#unmap.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#unmap.sam > ce#unmap.tmp.bam ./test_view -@4 ce#unmap.tmp.bam > ce#unmap.tmp.bam.sam_ ./compare_sam.pl ce#unmap.sam ce#unmap.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap.sam > ce#unmap.tmp.cram ./test_view -@4 -D ce#unmap.tmp.cram > ce#unmap.tmp.cram.sam_ ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap.tmp.bam > ce#unmap.tmp.bam.cram ./test_view -@4 ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.bam.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.ms ./test_view -@4 ce#unmap.tmp.bam.cram.ms > ce#unmap.tmp.bam.cram.sam_ ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.sam_ .. ok test_view testing ce#unmap1.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#unmap1.sam > ce#unmap1.tmp.bam ./test_view -@4 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.sam_ ./compare_sam.pl ce#unmap1.sam ce#unmap1.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap1.sam > ce#unmap1.tmp.cram ./test_view -@4 -D ce#unmap1.tmp.cram > ce#unmap1.tmp.cram.sam_ ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.cram ./test_view -@4 ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.bam.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.ms ./test_view -@4 ce#unmap1.tmp.bam.cram.ms > ce#unmap1.tmp.bam.cram.sam_ ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.sam_ .. ok test_view testing ce#unmap2.sam, ref ce.fa: ./test_view -@4 -S -l0 -b ce#unmap2.sam > ce#unmap2.tmp.bam ./test_view -@4 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.sam_ ./compare_sam.pl ce#unmap2.sam ce#unmap2.tmp.bam.sam_ ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap2.sam > ce#unmap2.tmp.cram ./test_view -@4 -D ce#unmap2.tmp.cram > ce#unmap2.tmp.cram.sam_ ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.cram.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.cram ./test_view -@4 ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.bam.sam_ ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.ms ./test_view -@4 ce#unmap2.tmp.bam.cram.ms > ce#unmap2.tmp.bam.cram.sam_ ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.sam_ .. ok test_view testing md#1.sam, ref md.fa: ./test_view -@4 -S -l0 -b md#1.sam > md#1.tmp.bam ./test_view -@4 md#1.tmp.bam > md#1.tmp.bam.sam_ ./compare_sam.pl md#1.sam md#1.tmp.bam.sam_ ./test_view -@4 -t md.fa -S -C -o VERSION=2.1 md#1.sam > md#1.tmp.cram ./test_view -@4 -D md#1.tmp.cram > md#1.tmp.cram.sam_ ./compare_sam.pl md#1.sam md#1.tmp.cram.sam_ ./test_view -@4 -t md.fa -C -o VERSION=3.0 md#1.tmp.bam > md#1.tmp.bam.cram ./test_view -@4 md#1.tmp.bam.cram > md#1.tmp.bam.cram.bam.sam_ ./compare_sam.pl md#1.sam md#1.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#blank.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#blank.sam > xx#blank.tmp.bam ./test_view -@4 xx#blank.tmp.bam > xx#blank.tmp.bam.sam_ ./compare_sam.pl xx#blank.sam xx#blank.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#blank.sam > xx#blank.tmp.cram ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_ ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#blank.tmp.bam > xx#blank.tmp.bam.cram ./test_view -@4 xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.bam.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.ms ./test_view -@4 xx#blank.tmp.bam.cram.ms > xx#blank.tmp.bam.cram.sam_ ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#blank.sam > xx#blank.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_ ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#blank.sam > xx#blank.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_ ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_ .. ok test_view testing xx#large_aux.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#large_aux.sam > xx#large_aux.tmp.bam ./test_view -@4 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.sam_ ./compare_sam.pl xx#large_aux.sam xx#large_aux.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#large_aux.sam > xx#large_aux.tmp.cram ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.cram ./test_view -@4 xx#large_aux.tmp.bam.cram > xx#large_aux.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.bam.cram.bam.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#large_aux.sam > xx#large_aux.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o fast xx#large_aux.sam > xx#large_aux.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o normal xx#large_aux.sam > xx#large_aux.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o small xx#large_aux.sam > xx#large_aux.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#large_aux.sam > xx#large_aux.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ ./test_view -@4 -i reference=xx.fa xx#large_aux_java.cram > xx#large_aux_java.tmp.sam_ [W::sanitise_SQ_lines] Header @SQ length mismatch for ref xx, 30 vs 20 ./compare_sam.pl -Baux -nomd xx#large_aux.sam xx#large_aux_java.tmp.sam_ .. ok test_view testing xx#large_aux2.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#large_aux2.sam > xx#large_aux2.tmp.bam ./test_view -@4 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.sam_ ./compare_sam.pl xx#large_aux2.sam xx#large_aux2.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#large_aux2.sam > xx#large_aux2.tmp.cram ./test_view -@4 -D xx#large_aux2.tmp.cram > xx#large_aux2.tmp.cram.sam_ ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.cram ./test_view -@4 xx#large_aux2.tmp.bam.cram > xx#large_aux2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#MD.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#MD.sam > xx#MD.tmp.bam ./test_view -@4 xx#MD.tmp.bam > xx#MD.tmp.bam.sam_ ./compare_sam.pl xx#MD.sam xx#MD.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#MD.sam > xx#MD.tmp.cram ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#MD.tmp.bam > xx#MD.tmp.bam.cram ./test_view -@4 xx#MD.tmp.bam.cram > xx#MD.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.bam.cram.bam.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#MD.sam > xx#MD.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#MD.sam > xx#MD.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_ .. ok test_view testing xx#MD2.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#MD2.sam > xx#MD2.tmp.bam ./test_view -@4 xx#MD2.tmp.bam > xx#MD2.tmp.bam.sam_ ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#MD2.sam > xx#MD2.tmp.cram ./test_view -@4 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#MD2.tmp.bam > xx#MD2.tmp.bam.cram ./test_view -@4 xx#MD2.tmp.bam.cram > xx#MD2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#minimal.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#minimal.sam > xx#minimal.tmp.bam ./test_view -@4 xx#minimal.tmp.bam > xx#minimal.tmp.bam.sam_ ./compare_sam.pl xx#minimal.sam xx#minimal.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#minimal.sam > xx#minimal.tmp.cram ./test_view -@4 -D xx#minimal.tmp.cram > xx#minimal.tmp.cram.sam_ ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#minimal.tmp.bam > xx#minimal.tmp.bam.cram ./test_view -@4 xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.bam.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.ms ./test_view -@4 xx#minimal.tmp.bam.cram.ms > xx#minimal.tmp.bam.cram.sam_ ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.sam_ .. ok test_view testing xx#pair.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#pair.sam > xx#pair.tmp.bam ./test_view -@4 xx#pair.tmp.bam > xx#pair.tmp.bam.sam_ ./compare_sam.pl xx#pair.sam xx#pair.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#pair.sam > xx#pair.tmp.cram ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_ ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#pair.tmp.bam > xx#pair.tmp.bam.cram ./test_view -@4 xx#pair.tmp.bam.cram > xx#pair.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.bam.cram.bam.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#pair.sam > xx#pair.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_ ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#pair.sam > xx#pair.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_ ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_ .. ok test_view testing xx#repeated.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#repeated.sam > xx#repeated.tmp.bam ./test_view -@4 xx#repeated.tmp.bam > xx#repeated.tmp.bam.sam_ ./compare_sam.pl xx#repeated.sam xx#repeated.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#repeated.sam > xx#repeated.tmp.cram ./test_view -@4 -D xx#repeated.tmp.cram > xx#repeated.tmp.cram.sam_ ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#repeated.tmp.bam > xx#repeated.tmp.bam.cram ./test_view -@4 xx#repeated.tmp.bam.cram > xx#repeated.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#rg.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#rg.sam > xx#rg.tmp.bam ./test_view -@4 xx#rg.tmp.bam > xx#rg.tmp.bam.sam_ ./compare_sam.pl xx#rg.sam xx#rg.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#rg.sam > xx#rg.tmp.cram ./test_view -@4 -D xx#rg.tmp.cram > xx#rg.tmp.cram.sam_ ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#rg.tmp.bam > xx#rg.tmp.bam.cram ./test_view -@4 xx#rg.tmp.bam.cram > xx#rg.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.bam.cram.bam.sam_ .. ok test_view testing xx#tlen.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#tlen.sam > xx#tlen.tmp.bam ./test_view -@4 xx#tlen.tmp.bam > xx#tlen.tmp.bam.sam_ ./compare_sam.pl xx#tlen.sam xx#tlen.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#tlen.sam > xx#tlen.tmp.cram ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_ ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#tlen.tmp.bam > xx#tlen.tmp.bam.cram ./test_view -@4 xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.bam.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.ms ./test_view -@4 xx#tlen.tmp.bam.cram.ms > xx#tlen.tmp.bam.cram.sam_ ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#tlen.sam > xx#tlen.tmp.cram [W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_ ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_ ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#tlen.sam > xx#tlen.tmp.cram [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. This is a technology demonstration that should not be used for archival data. ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_ ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_ .. ok test_view testing xx#tlen2.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#tlen2.sam > xx#tlen2.tmp.bam ./test_view -@4 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.sam_ ./compare_sam.pl xx#tlen2.sam xx#tlen2.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#tlen2.sam > xx#tlen2.tmp.cram ./test_view -@4 -D xx#tlen2.tmp.cram > xx#tlen2.tmp.cram.sam_ ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.cram ./test_view -@4 xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.bam.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.ms ./test_view -@4 xx#tlen2.tmp.bam.cram.ms > xx#tlen2.tmp.bam.cram.sam_ ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.sam_ .. ok test_view testing xx#triplet.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#triplet.sam > xx#triplet.tmp.bam ./test_view -@4 xx#triplet.tmp.bam > xx#triplet.tmp.bam.sam_ ./compare_sam.pl xx#triplet.sam xx#triplet.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#triplet.sam > xx#triplet.tmp.cram ./test_view -@4 -D xx#triplet.tmp.cram > xx#triplet.tmp.cram.sam_ ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#triplet.tmp.bam > xx#triplet.tmp.bam.cram ./test_view -@4 xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.bam.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.ms ./test_view -@4 xx#triplet.tmp.bam.cram.ms > xx#triplet.tmp.bam.cram.sam_ ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.sam_ .. ok test_view testing xx#unsorted.sam, ref xx.fa: ./test_view -@4 -S -l0 -b xx#unsorted.sam > xx#unsorted.tmp.bam ./test_view -@4 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.sam_ ./compare_sam.pl xx#unsorted.sam xx#unsorted.tmp.bam.sam_ ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#unsorted.sam > xx#unsorted.tmp.cram ./test_view -@4 -D xx#unsorted.tmp.cram > xx#unsorted.tmp.cram.sam_ ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.cram.sam_ ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.cram ./test_view -@4 xx#unsorted.tmp.bam.cram > xx#unsorted.tmp.bam.cram.bam.sam_ ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.bam.cram.bam.sam_ .. ok test_view testing region queries: ./test_view -@4 -i reference=ce.fa range.cram CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp ./compare_sam.pl range.tmp range.out ./test_view -@4 range.bam CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp ./compare_sam.pl range.tmp range.out .. ok test_view testing BAM files with absent @SQ lines: ./test_view -@4 -p no_hdr_sq_1.tmp.sam no_hdr_sq_1.bam ./compare_sam.pl no_hdr_sq_1.tmp.sam no_hdr_sq_1.expected.sam ./test_view -@4 -p no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.bam CHROMOSOME_I ./compare_sam.pl no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.expected.sam .. ok test_view testing large (> 2Gbases) positions: ./test_view -@4 -z -p longrefs/longref.tmp.sam.gz -x longrefs/longref.tmp.sam.gz.csi.otf -m 14 longrefs/longref.sam ./test_view -@4 -p longrefs/longref.tmp.sam_ longrefs/longref.tmp.sam.gz ./compare_sam.pl longrefs/longref.sam longrefs/longref.tmp.sam_ test_view: /builddir/build/BUILD/htslib-1.15.1/test/test_index -c longrefs/longref.tmp.sam.gz .. ok ./test_view -@4 -p longrefs/longref_itr.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 ./compare_sam.pl longrefs/longref_itr.expected.sam longrefs/longref_itr.tmp.sam ./test_view -@4 -M -p longrefs/longref_multi.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 CHROMOSOME_I:10000000100-10000000110 ./compare_sam.pl longrefs/longref_multi.expected.sam longrefs/longref_multi.tmp.sam .. ok test_MD testing xx#MD.sam, ref xx.fa: ./test_view -o store_nm=1 -o store_md=1 -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram ./test_view -i decode_md=0 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ ./compare_sam.pl xx#MD.sam xx#MD.tmp.cram.sam_ ./test_view -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram ./test_view -i decode_md=0 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ ./compare_sam.pl -partialmd=2 xx#MD.sam xx#MD.tmp.cram.sam_ Checking for MD/NM in xx#MD.sam ./test_view -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram ./test_view -i decode_md=1 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ ./compare_sam.pl -partialmd=1 xx#MD.sam xx#MD.tmp.cram.sam_ .. ok test_MD testing xx#MD2.sam, ref xx.fa: ./test_view -o store_nm=1 -o store_md=1 -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram ./test_view -i decode_md=0 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.cram.sam_ ./test_view -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram ./test_view -i decode_md=0 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ ./compare_sam.pl -partialmd=2 xx#MD2.sam xx#MD2.tmp.cram.sam_ ./test_view -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram ./test_view -i decode_md=1 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ ./compare_sam.pl -partialmd=1 xx#MD2.sam xx#MD2.tmp.cram.sam_ .. ok test_vcf_api: /builddir/build/BUILD/htslib-1.15.1/test/test-vcf-api /tmp/YBdzagSPfW/test-vcf-api.bcf [W::bcf_record_check] Bad BCF record at 1:1: No REF allele [E::bcf_index_build3] TBI indices for BCF files are not supported [E::idx_find_and_load] Could not retrieve index file for '/tmp/YBdzagSPfW/test-vcf-api.bcf' .. ok test_bcf2vcf: /builddir/build/BUILD/htslib-1.15.1/test/test_view /builddir/build/BUILD/htslib-1.15.1/test/tabix/vcf_file.bcf .. ok test_vcf_sweep: /builddir/build/BUILD/htslib-1.15.1/test/test-vcf-sweep /tmp/YBdzagSPfW/test-vcf-api.bcf .. ok test_vcf_various: /builddir/build/BUILD/htslib-1.15.1/htsfile -ch /builddir/build/BUILD/htslib-1.15.1/test/test-vcf-hdr-in.vcf .. ok test_vcf_various: /builddir/build/BUILD/htslib-1.15.1/htsfile -c /builddir/build/BUILD/htslib-1.15.1/test/formatcols.vcf .. ok test_vcf_various: /builddir/build/BUILD/htslib-1.15.1/htsfile -c /builddir/build/BUILD/htslib-1.15.1/test/noroundtrip.vcf .. ok test_vcf_various: /builddir/build/BUILD/htslib-1.15.1/htsfile -c /builddir/build/BUILD/htslib-1.15.1/test/formatmissing.vcf .. ok test_vcf_various: /builddir/build/BUILD/htslib-1.15.1/htsfile -c /builddir/build/BUILD/htslib-1.15.1/test/vcf_meta_meta.vcf .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 271541284 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 559495311 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 49190067 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 1240056685 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 794864285 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 303457444 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 48771766 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 833262771 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 1365224184 .. ok test-bcf-sr: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/YBdzagSPfW -s 1261522548 .. ok test_command: /builddir/build/BUILD/htslib-1.15.1/test/test-bcf-translate - .. ok test_convert_padded_header: /builddir/build/BUILD/htslib-1.15.1/test/test_view -t ce.fa -C /tmp/YBdzagSPfW/headernul0.bam .. ok test_convert_padded_header: /builddir/build/BUILD/htslib-1.15.1/test/test_view -t ce.fa -C /tmp/YBdzagSPfW/headernul1.bam .. ok test_convert_padded_header: /builddir/build/BUILD/htslib-1.15.1/test/test_view -t ce.fa -C /tmp/YBdzagSPfW/headernul678.bam .. ok test_rebgzip: /builddir/build/BUILD/htslib-1.15.1/bgzip -I /builddir/build/BUILD/htslib-1.15.1/test/bgziptest.txt.gz.gzi -c -g /builddir/build/BUILD/htslib-1.15.1/test/bgziptest.txt .. ok test-logging: /builddir/build/BUILD/htslib-1.15.1/test/test-logging.pl .. ok test_plugin_loading: HTS_PATH=/builddir/build/BUILD/htslib-1.15.1 /builddir/build/BUILD/htslib-1.15.1/test/with-shlib.sh /builddir/build/BUILD/htslib-1.15.1/htsfile https://localhost:99999/invalid_port .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -f /builddir/build/BUILD/htslib-1.15.1/test/realn01.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn01.sam -o - .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -f /builddir/build/BUILD/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn02.sam -o - .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -a -f /builddir/build/BUILD/htslib-1.15.1/test/realn01.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn01.sam -o - .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -a -f /builddir/build/BUILD/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn02.sam -o - .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -e -f /builddir/build/BUILD/htslib-1.15.1/test/realn01.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn01.sam -o - .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -e -f /builddir/build/BUILD/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn02.sam -o - .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -r -f /builddir/build/BUILD/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn02-r.sam -o - .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -a -f /builddir/build/BUILD/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn02_exp.sam -o - .. ok test_realn: /builddir/build/BUILD/htslib-1.15.1/test/test_realn -f /builddir/build/BUILD/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1/test/realn02_exp-a.sam -o - .. ok Number of tests: total .. 172 passed .. 172 failed .. 0 + RPM_EC=0 ++ jobs -p + exit 0 Processing files: htslib-1.15.1-1.el9.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.lqLLLw + umask 022 + cd /builddir/build/BUILD + cd htslib-1.15.1 + DOCDIR=/builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/doc/htslib + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/doc/htslib + cp -pr NEWS /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/doc/htslib + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.AV4IQI + umask 022 + cd /builddir/build/BUILD + cd htslib-1.15.1 + LICENSEDIR=/builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/licenses/htslib + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/licenses/htslib + cp -pr LICENSE /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64/usr/share/licenses/htslib + RPM_EC=0 ++ jobs -p + exit 0 Provides: htslib = 1.15.1-1.el9 htslib(x86-64) = 1.15.1-1.el9 libhts.so.3()(64bit) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libcrypto.so.3()(64bit) libcrypto.so.3(OPENSSL_3.0.0)(64bit) libcurl.so.4()(64bit) libhts.so.3()(64bit) liblzma.so.5()(64bit) liblzma.so.5(XZ_5.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libz.so.1()(64bit) rtld(GNU_HASH) Processing files: htslib-devel-1.15.1-1.el9.x86_64 Provides: htslib-devel = 1.15.1-1.el9 htslib-devel(x86-64) = 1.15.1-1.el9 pkgconfig(htslib) = 1.15.1 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/pkg-config libhts.so.3()(64bit) Processing files: htslib-tools-1.15.1-1.el9.x86_64 Provides: htslib-tools = 1.15.1-1.el9 htslib-tools(x86-64) = 1.15.1-1.el9 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) liblzma.so.5()(64bit) liblzma.so.5(XZ_5.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.29)(64bit) libz.so.1()(64bit) rtld(GNU_HASH) Processing files: htslib-debugsource-1.15.1-1.el9.x86_64 Provides: htslib-debugsource = 1.15.1-1.el9 htslib-debugsource(x86-64) = 1.15.1-1.el9 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: htslib-debuginfo-1.15.1-1.el9.x86_64 Provides: debuginfo(build-id) = 27311df1be955b5b644fd4b02186a8496a0a540c debuginfo(build-id) = 296813331f4b0c4bcf1fdac1b6bdb093cb6ec857 debuginfo(build-id) = 4e8915352a948e123f7fde3b8397885bdec343a9 debuginfo(build-id) = 9f470f6c4e13889ecbf455cdf2ade514d48c8ae5 debuginfo(build-id) = f843d031a3b89fb08d9d6b623ad94b0f52fb5239 htslib-debuginfo = 1.15.1-1.el9 htslib-debuginfo(x86-64) = 1.15.1-1.el9 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: htslib-debugsource(x86-64) = 1.15.1-1.el9 Processing files: htslib-tools-debuginfo-1.15.1-1.el9.x86_64 Provides: debuginfo(build-id) = 61f215a46bf53fc70dced28f5c9760a041b2a7da debuginfo(build-id) = d7cbaf8d3a0568c4fe95eee74a6045f0aec97280 debuginfo(build-id) = efd7cb1f6e433b909398223e30c0ba9d466eadf9 htslib-tools-debuginfo = 1.15.1-1.el9 htslib-tools-debuginfo(x86-64) = 1.15.1-1.el9 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: htslib-debugsource(x86-64) = 1.15.1-1.el9 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64 Wrote: /builddir/build/RPMS/htslib-debuginfo-1.15.1-1.el9.x86_64.rpm Wrote: /builddir/build/RPMS/htslib-debugsource-1.15.1-1.el9.x86_64.rpm Wrote: /builddir/build/RPMS/htslib-tools-debuginfo-1.15.1-1.el9.x86_64.rpm Wrote: /builddir/build/RPMS/htslib-1.15.1-1.el9.x86_64.rpm Wrote: /builddir/build/RPMS/htslib-tools-1.15.1-1.el9.x86_64.rpm Wrote: /builddir/build/RPMS/htslib-devel-1.15.1-1.el9.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.xpxQX8 + umask 022 + cd /builddir/build/BUILD + cd htslib-1.15.1 + /usr/bin/rm -rf /builddir/build/BUILDROOT/htslib-1.15.1-1.el9.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild htslib-1.15.1-1.el9.src.rpm Finish: build phase for htslib-1.15.1-1.el9.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/rhel+epel-9-x86_64-1674273919.724043/root/var/log/dnf.rpm.log /var/lib/mock/rhel+epel-9-x86_64-1674273919.724043/root/var/log/dnf.librepo.log /var/lib/mock/rhel+epel-9-x86_64-1674273919.724043/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/htslib-1.15.1-1.el9.src.rpm) Config(child) 4 minutes 35 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