Warning: Permanently added '3.92.196.8' (ED25519) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 4733910 --chroot fedora-rawhide-aarch64 --detached Version: 0.61 PID: 7469 Logging PID: 7470 Task: {'appstream': True, 'background': False, 'bootstrap': 'off', 'build_id': 4733910, 'buildroot_pkgs': [], 'chroot': 'fedora-rawhide-aarch64', 'enable_net': False, 'fedora_review': False, 'git_hash': '00e9239ef0d1f3ea39c07da84538bfbc7d86f9dd', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/jaruga/staging/samtools', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'samtools', 'package_version': '1.15.1-1.fc38', 'project_dirname': 'staging', 'project_name': 'staging', 'project_owner': 'jaruga', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/jaruga/staging/fedora-rawhide-aarch64/', 'id': 'copr_base', 'name': 'Copr repository'}], 'sandbox': 'jaruga/staging--jaruga', 'source_json': {}, 'source_type': None, 'submitter': 'jaruga', 'tags': [], 'task_id': '4733910-fedora-rawhide-aarch64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/jaruga/staging/samtools /var/lib/copr-rpmbuild/workspace/workdir-r8vkqrej/samtools --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/jaruga/staging/samtools', '/var/lib/copr-rpmbuild/workspace/workdir-r8vkqrej/samtools', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-r8vkqrej/samtools'... Running: git checkout 00e9239ef0d1f3ea39c07da84538bfbc7d86f9dd cmd: ['git', 'checkout', '00e9239ef0d1f3ea39c07da84538bfbc7d86f9dd'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-r8vkqrej/samtools rc: 0 stdout: stderr: Note: switching to '00e9239ef0d1f3ea39c07da84538bfbc7d86f9dd'. 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 00e9239 automatic import of samtools Running: copr-distgit-client sources cmd: ['copr-distgit-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-r8vkqrej/samtools 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 samtools-1.15.1.tar.bz2 /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated INFO: Calling: curl -H Pragma: -o samtools-1.15.1.tar.bz2 --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/jaruga/staging/samtools/samtools-1.15.1.tar.bz2/md5/b71d1aa1de9749773b1a04bf54281ca0/samtools-1.15.1.tar.bz2 % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 7648k 100 7648k 0 0 82.6M 0 --:--:-- --:--:-- --:--:-- 82.9M INFO: Reading stdout from command: md5sum samtools-1.15.1.tar.bz2 Running (timeout=18000): unbuffer mock --buildsrpm --spec /var/lib/copr-rpmbuild/workspace/workdir-r8vkqrej/samtools/samtools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-r8vkqrej/samtools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1660573597.814740 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.1 starting (python version = 3.10.4, NVR = mock-3.1-1.fc35)... 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-r8vkqrej/samtools/samtools.spec) Config(fedora-rawhide-aarch64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1660573597.814740/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: 3.1 INFO: Mock Version: 3.1 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 105 kB/s | 23 kB 00:00 fedora 16 MB/s | 61 MB 00:03 Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing group/module packages: bash aarch64 5.1.16-3.fc37 fedora 1.7 M bzip2 aarch64 1.0.8-12.fc37 fedora 52 k coreutils aarch64 9.1-6.fc37 fedora 1.0 M cpio aarch64 2.13-13.fc37 fedora 274 k diffutils aarch64 3.8-3.fc37 fedora 376 k fedora-release-common noarch 38-0.2 fedora 22 k findutils aarch64 1:4.9.0-2.fc37 fedora 493 k gawk aarch64 5.1.1-4.fc37 fedora 1.0 M glibc-minimal-langpack aarch64 2.36-1.fc37 fedora 81 k grep aarch64 3.7-4.fc37 fedora 270 k gzip aarch64 1.12-2.fc37 fedora 164 k info aarch64 6.8-4.fc37 fedora 220 k patch aarch64 2.7.6-17.fc37 fedora 121 k redhat-rpm-config noarch 227-1.fc37 fedora 80 k rpm-build aarch64 4.18.0-0.beta1.4.fc37 fedora 77 k sed aarch64 4.8-11.fc37 fedora 304 k shadow-utils aarch64 2:4.11.1-4.fc37 fedora 1.1 M tar aarch64 2:1.34-3.fc36 fedora 877 k unzip aarch64 6.0-58.fc37 fedora 182 k util-linux aarch64 2.38.1-1.fc37 fedora 2.3 M which aarch64 2.21-35.fc37 fedora 41 k xz aarch64 5.2.5-10.fc37 fedora 223 k Installing dependencies: alternatives aarch64 1.19-3.fc37 fedora 35 k ansible-srpm-macros noarch 1-6.fc37 fedora 7.5 k audit-libs aarch64 3.0.8-3.fc37 fedora 116 k authselect aarch64 1.4.0-3.fc37 fedora 144 k authselect-libs aarch64 1.4.0-3.fc37 fedora 247 k basesystem noarch 11-14.fc37 fedora 7.0 k binutils aarch64 2.38-24.fc38 fedora 5.8 M binutils-gold aarch64 2.38-24.fc38 fedora 924 k bzip2-libs aarch64 1.0.8-12.fc37 fedora 43 k ca-certificates noarch 2022.2.54-5.fc37 fedora 829 k coreutils-common aarch64 9.1-6.fc37 fedora 2.0 M cracklib aarch64 2.9.6-28.fc36 fedora 93 k crypto-policies noarch 20220802-1.gita99dfd2.fc37 fedora 86 k curl aarch64 7.84.0-2.fc37 fedora 309 k cyrus-sasl-lib aarch64 2.1.28-7.fc37 fedora 777 k debugedit aarch64 5.0-5.fc37 fedora 76 k dwz aarch64 0.14-7.fc37 fedora 126 k ed aarch64 1.18-2.fc37 fedora 78 k efi-srpm-macros noarch 5-6.fc37 fedora 22 k elfutils aarch64 0.187-6.fc37 fedora 522 k elfutils-debuginfod-client aarch64 0.187-6.fc37 fedora 38 k elfutils-default-yama-scope noarch 0.187-6.fc37 fedora 17 k elfutils-libelf aarch64 0.187-6.fc37 fedora 197 k elfutils-libs aarch64 0.187-6.fc37 fedora 256 k fedora-gpg-keys noarch 38-0.2 fedora 125 k fedora-release noarch 38-0.2 fedora 12 k fedora-release-identity-basic noarch 38-0.2 fedora 12 k fedora-repos noarch 38-0.2 fedora 10 k fedora-repos-rawhide noarch 38-0.2 fedora 9.6 k file aarch64 5.42-4.fc37 fedora 49 k file-libs aarch64 5.42-4.fc37 fedora 674 k filesystem aarch64 3.18-2.fc37 fedora 1.1 M fonts-srpm-macros noarch 1:2.0.5-8.fc37 fedora 26 k fpc-srpm-macros noarch 1.3-6.fc37 fedora 7.7 k gdb-minimal aarch64 12.1-4.fc37 fedora 3.5 M gdbm-libs aarch64 1:1.23-2.fc37 fedora 57 k ghc-srpm-macros noarch 1.5.0-7.fc37 fedora 7.8 k glibc aarch64 2.36-1.fc37 fedora 1.8 M glibc-common aarch64 2.36-1.fc37 fedora 355 k glibc-gconv-extra aarch64 2.36-1.fc37 fedora 1.7 M gmp aarch64 1:6.2.1-3.fc37 fedora 265 k gnat-srpm-macros noarch 4-16.fc37 fedora 8.3 k go-srpm-macros noarch 3.1.0-4.fc37 fedora 27 k jansson aarch64 2.13.1-5.fc37 fedora 46 k kernel-srpm-macros noarch 1.0-15.fc37 fedora 9.4 k keyutils-libs aarch64 1.6.1-5.fc37 fedora 31 k krb5-libs aarch64 1.19.2-11.fc37.1 fedora 733 k libacl aarch64 2.3.1-4.fc37 fedora 23 k libarchive aarch64 3.6.1-2.fc37 fedora 392 k libattr aarch64 2.5.1-5.fc37 fedora 18 k libblkid aarch64 2.38.1-1.fc37 fedora 106 k libbrotli aarch64 1.0.9-9.fc37 fedora 318 k libcap aarch64 2.48-5.fc37 fedora 67 k libcap-ng aarch64 0.8.3-3.fc37 fedora 33 k libcom_err aarch64 1.46.5-3.fc37 fedora 25 k libcurl aarch64 7.84.0-2.fc37 fedora 301 k libdb aarch64 5.3.28-53.fc37 fedora 737 k libeconf aarch64 0.4.0-4.fc37 fedora 26 k libevent aarch64 2.1.12-7.fc37 fedora 254 k libfdisk aarch64 2.38.1-1.fc37 fedora 155 k libffi aarch64 3.4.2-9.fc37 fedora 36 k libgcc aarch64 12.1.1-4.fc38 fedora 92 k libgomp aarch64 12.1.1-4.fc38 fedora 290 k libidn2 aarch64 2.3.3-2.fc37 fedora 114 k libmount aarch64 2.38.1-1.fc37 fedora 133 k libnghttp2 aarch64 1.48.0-2.fc37 fedora 73 k libnsl2 aarch64 2.0.0-4.fc37 fedora 30 k libpkgconf aarch64 1.8.0-3.fc37 fedora 36 k libpsl aarch64 0.21.1-6.fc37 fedora 63 k libpwquality aarch64 1.4.4-11.fc37 fedora 116 k libselinux aarch64 3.4-5.fc37 fedora 85 k libsemanage aarch64 3.4-5.fc37 fedora 116 k libsepol aarch64 3.4-3.fc37 fedora 310 k libsigsegv aarch64 2.14-3.fc37 fedora 27 k libsmartcols aarch64 2.38.1-1.fc37 fedora 63 k libssh aarch64 0.9.6-5.fc37 fedora 202 k libssh-config noarch 0.9.6-5.fc37 fedora 7.8 k libstdc++ aarch64 12.1.1-4.fc38 fedora 760 k libtasn1 aarch64 4.18.0-3.fc37 fedora 73 k libtirpc aarch64 1.3.3-0.fc37 fedora 94 k libunistring aarch64 1.0-2.fc37 fedora 543 k libutempter aarch64 1.2.1-7.fc37 fedora 26 k libuuid aarch64 2.38.1-1.fc37 fedora 28 k libverto aarch64 0.3.2-4.fc37 fedora 21 k libxcrypt aarch64 4.4.28-3.fc38 fedora 121 k libxml2 aarch64 2.9.14-3.fc37 fedora 734 k libzstd aarch64 1.5.2-3.fc37 fedora 267 k lua-libs aarch64 5.4.4-4.fc37 fedora 213 k lua-srpm-macros noarch 1-7.fc37 fedora 8.8 k lz4-libs aarch64 1.9.3-5.fc37 fedora 70 k mpfr aarch64 4.1.0-10.fc37 fedora 240 k ncurses-base noarch 6.3-3.20220501.fc37 fedora 86 k ncurses-libs aarch64 6.3-3.20220501.fc37 fedora 318 k nim-srpm-macros noarch 3-7.fc37 fedora 8.4 k ocaml-srpm-macros noarch 7-2.fc37 fedora 13 k openblas-srpm-macros noarch 2-12.fc37 fedora 7.5 k openldap aarch64 2.6.2-5.fc38 fedora 250 k openssl-libs aarch64 1:3.0.5-2.fc37 fedora 2.0 M p11-kit aarch64 0.24.1-3.fc37 fedora 361 k p11-kit-trust aarch64 0.24.1-3.fc37 fedora 138 k package-notes-srpm-macros noarch 0.4-16.fc37 fedora 11 k pam aarch64 1.5.2-14.fc37 fedora 567 k pam-libs aarch64 1.5.2-14.fc37 fedora 58 k pcre aarch64 8.45-1.fc37.2 fedora 184 k pcre2 aarch64 10.40-1.fc37.1 fedora 219 k pcre2-syntax noarch 10.40-1.fc37.1 fedora 142 k perl-srpm-macros noarch 1-46.fc37 fedora 8.3 k pkgconf aarch64 1.8.0-3.fc37 fedora 41 k pkgconf-m4 noarch 1.8.0-3.fc37 fedora 14 k pkgconf-pkg-config aarch64 1.8.0-3.fc37 fedora 10 k popt aarch64 1.19~rc1-3.fc37 fedora 65 k publicsuffix-list-dafsa noarch 20210518-5.fc37 fedora 58 k python-srpm-macros noarch 3.11-4.fc37 fedora 25 k qt5-srpm-macros noarch 5.15.5-2.fc37 fedora 8.1 k readline aarch64 8.1-7.fc37 fedora 209 k rpm aarch64 4.18.0-0.beta1.4.fc37 fedora 565 k rpm-build-libs aarch64 4.18.0-0.beta1.4.fc37 fedora 90 k rpm-libs aarch64 4.18.0-0.beta1.4.fc37 fedora 311 k rpmautospec-rpm-macros noarch 0.3.0-1.fc37 fedora 8.8 k rust-srpm-macros noarch 22-1.fc37 fedora 9.5 k setup noarch 2.14.1-2.fc37 fedora 149 k sqlite-libs aarch64 3.39.2-2.fc37 fedora 658 k systemd-libs aarch64 251.4-51.fc37 fedora 591 k tzdata noarch 2022b-1.fc38 fedora 717 k util-linux-core aarch64 2.38.1-1.fc37 fedora 471 k xxhash-libs aarch64 0.8.1-3.fc37 fedora 33 k xz-libs aarch64 5.2.5-10.fc37 fedora 90 k zip aarch64 3.0-33.fc37 fedora 256 k zlib aarch64 1.2.12-4.fc37 fedora 93 k zstd aarch64 1.5.2-3.fc37 fedora 412 k Installing Groups: Buildsystem building group Transaction Summary ================================================================================ Install 152 Packages Total download size: 50 M Installed size: 204 M Downloading Packages: (1/152): ansible-srpm-macros-1-6.fc37.noarch.rp 169 kB/s | 7.5 kB 00:00 (2/152): audit-libs-3.0.8-3.fc37.aarch64.rpm 2.2 MB/s | 116 kB 00:00 (3/152): alternatives-1.19-3.fc37.aarch64.rpm 505 kB/s | 35 kB 00:00 (4/152): authselect-1.4.0-3.fc37.aarch64.rpm 5.4 MB/s | 144 kB 00:00 (5/152): authselect-libs-1.4.0-3.fc37.aarch64.r 8.2 MB/s | 247 kB 00:00 (6/152): basesystem-11-14.fc37.noarch.rpm 645 kB/s | 7.0 kB 00:00 (7/152): bash-5.1.16-3.fc37.aarch64.rpm 23 MB/s | 1.7 MB 00:00 (8/152): binutils-gold-2.38-24.fc38.aarch64.rpm 14 MB/s | 924 kB 00:00 (9/152): bzip2-1.0.8-12.fc37.aarch64.rpm 7.0 MB/s | 52 kB 00:00 (10/152): bzip2-libs-1.0.8-12.fc37.aarch64.rpm 4.7 MB/s | 43 kB 00:00 (11/152): ca-certificates-2022.2.54-5.fc37.noar 30 MB/s | 829 kB 00:00 (12/152): coreutils-9.1-6.fc37.aarch64.rpm 14 MB/s | 1.0 MB 00:00 (13/152): coreutils-common-9.1-6.fc37.aarch64.r 31 MB/s | 2.0 MB 00:00 (14/152): binutils-2.38-24.fc38.aarch64.rpm 32 MB/s | 5.8 MB 00:00 (15/152): cpio-2.13-13.fc37.aarch64.rpm 8.1 MB/s | 274 kB 00:00 (16/152): cracklib-2.9.6-28.fc36.aarch64.rpm 4.7 MB/s | 93 kB 00:00 (17/152): crypto-policies-20220802-1.gita99dfd2 11 MB/s | 86 kB 00:00 (18/152): debugedit-5.0-5.fc37.aarch64.rpm 8.4 MB/s | 76 kB 00:00 (19/152): cyrus-sasl-lib-2.1.28-7.fc37.aarch64. 31 MB/s | 777 kB 00:00 (20/152): curl-7.84.0-2.fc37.aarch64.rpm 11 MB/s | 309 kB 00:00 (21/152): diffutils-3.8-3.fc37.aarch64.rpm 26 MB/s | 376 kB 00:00 (22/152): ed-1.18-2.fc37.aarch64.rpm 14 MB/s | 78 kB 00:00 (23/152): dwz-0.14-7.fc37.aarch64.rpm 12 MB/s | 126 kB 00:00 (24/152): efi-srpm-macros-5-6.fc37.noarch.rpm 3.5 MB/s | 22 kB 00:00 (25/152): elfutils-default-yama-scope-0.187-6.f 6.1 MB/s | 17 kB 00:00 (26/152): elfutils-debuginfod-client-0.187-6.fc 8.5 MB/s | 38 kB 00:00 (27/152): elfutils-libelf-0.187-6.fc37.aarch64. 23 MB/s | 197 kB 00:00 (28/152): elfutils-libs-0.187-6.fc37.aarch64.rp 24 MB/s | 256 kB 00:00 (29/152): fedora-release-38-0.2.noarch.rpm 5.0 MB/s | 12 kB 00:00 (30/152): fedora-gpg-keys-38-0.2.noarch.rpm 12 MB/s | 125 kB 00:00 (31/152): elfutils-0.187-6.fc37.aarch64.rpm 18 MB/s | 522 kB 00:00 (32/152): fedora-release-common-38-0.2.noarch.r 3.2 MB/s | 22 kB 00:00 (33/152): fedora-release-identity-basic-38-0.2. 3.4 MB/s | 12 kB 00:00 (34/152): fedora-repos-rawhide-38-0.2.noarch.rp 2.8 MB/s | 9.6 kB 00:00 (35/152): file-5.42-4.fc37.aarch64.rpm 9.6 MB/s | 49 kB 00:00 (36/152): fedora-repos-38-0.2.noarch.rpm 1.3 MB/s | 10 kB 00:00 (37/152): findutils-4.9.0-2.fc37.aarch64.rpm 24 MB/s | 493 kB 00:00 (38/152): file-libs-5.42-4.fc37.aarch64.rpm 23 MB/s | 674 kB 00:00 (39/152): fonts-srpm-macros-2.0.5-8.fc37.noarch 3.4 MB/s | 26 kB 00:00 (40/152): fpc-srpm-macros-1.3-6.fc37.noarch.rpm 928 kB/s | 7.7 kB 00:00 (41/152): gawk-5.1.1-4.fc37.aarch64.rpm 21 MB/s | 1.0 MB 00:00 (42/152): gdbm-libs-1.23-2.fc37.aarch64.rpm 12 MB/s | 57 kB 00:00 (43/152): ghc-srpm-macros-1.5.0-7.fc37.noarch.r 2.6 MB/s | 7.8 kB 00:00 (44/152): gdb-minimal-12.1-4.fc37.aarch64.rpm 35 MB/s | 3.5 MB 00:00 (45/152): glibc-common-2.36-1.fc37.aarch64.rpm 25 MB/s | 355 kB 00:00 (46/152): filesystem-3.18-2.fc37.aarch64.rpm 5.7 MB/s | 1.1 MB 00:00 (47/152): glibc-minimal-langpack-2.36-1.fc37.aa 5.8 MB/s | 81 kB 00:00 (48/152): glibc-2.36-1.fc37.aarch64.rpm 14 MB/s | 1.8 MB 00:00 (49/152): gmp-6.2.1-3.fc37.aarch64.rpm 19 MB/s | 265 kB 00:00 (50/152): glibc-gconv-extra-2.36-1.fc37.aarch64 25 MB/s | 1.7 MB 00:00 (51/152): gnat-srpm-macros-4-16.fc37.noarch.rpm 1.1 MB/s | 8.3 kB 00:00 (52/152): go-srpm-macros-3.1.0-4.fc37.noarch.rp 4.3 MB/s | 27 kB 00:00 (53/152): gzip-1.12-2.fc37.aarch64.rpm 23 MB/s | 164 kB 00:00 (54/152): info-6.8-4.fc37.aarch64.rpm 16 MB/s | 220 kB 00:00 (55/152): grep-3.7-4.fc37.aarch64.rpm 16 MB/s | 270 kB 00:00 (56/152): jansson-2.13.1-5.fc37.aarch64.rpm 4.2 MB/s | 46 kB 00:00 (57/152): kernel-srpm-macros-1.0-15.fc37.noarch 2.1 MB/s | 9.4 kB 00:00 (58/152): keyutils-libs-1.6.1-5.fc37.aarch64.rp 8.1 MB/s | 31 kB 00:00 (59/152): libacl-2.3.1-4.fc37.aarch64.rpm 3.0 MB/s | 23 kB 00:00 (60/152): libattr-2.5.1-5.fc37.aarch64.rpm 5.2 MB/s | 18 kB 00:00 (61/152): libblkid-2.38.1-1.fc37.aarch64.rpm 15 MB/s | 106 kB 00:00 (62/152): libarchive-3.6.1-2.fc37.aarch64.rpm 13 MB/s | 392 kB 00:00 (63/152): libbrotli-1.0.9-9.fc37.aarch64.rpm 24 MB/s | 318 kB 00:00 (64/152): krb5-libs-1.19.2-11.fc37.1.aarch64.rp 19 MB/s | 733 kB 00:00 (65/152): libcap-2.48-5.fc37.aarch64.rpm 11 MB/s | 67 kB 00:00 (66/152): libcap-ng-0.8.3-3.fc37.aarch64.rpm 4.4 MB/s | 33 kB 00:00 (67/152): libcom_err-1.46.5-3.fc37.aarch64.rpm 4.8 MB/s | 25 kB 00:00 (68/152): libeconf-0.4.0-4.fc37.aarch64.rpm 6.4 MB/s | 26 kB 00:00 (69/152): libcurl-7.84.0-2.fc37.aarch64.rpm 22 MB/s | 301 kB 00:00 (70/152): libevent-2.1.12-7.fc37.aarch64.rpm 20 MB/s | 254 kB 00:00 (71/152): libdb-5.3.28-53.fc37.aarch64.rpm 33 MB/s | 737 kB 00:00 (72/152): libffi-3.4.2-9.fc37.aarch64.rpm 6.3 MB/s | 36 kB 00:00 (73/152): libfdisk-2.38.1-1.fc37.aarch64.rpm 8.6 MB/s | 155 kB 00:00 (74/152): libgcc-12.1.1-4.fc38.aarch64.rpm 10 MB/s | 92 kB 00:00 (75/152): libidn2-2.3.3-2.fc37.aarch64.rpm 9.7 MB/s | 114 kB 00:00 (76/152): libmount-2.38.1-1.fc37.aarch64.rpm 10 MB/s | 133 kB 00:00 (77/152): libgomp-12.1.1-4.fc38.aarch64.rpm 14 MB/s | 290 kB 00:00 (78/152): libnghttp2-1.48.0-2.fc37.aarch64.rpm 14 MB/s | 73 kB 00:00 (79/152): libnsl2-2.0.0-4.fc37.aarch64.rpm 8.0 MB/s | 30 kB 00:00 (80/152): libpkgconf-1.8.0-3.fc37.aarch64.rpm 9.8 MB/s | 36 kB 00:00 (81/152): libpwquality-1.4.4-11.fc37.aarch64.rp 20 MB/s | 116 kB 00:00 (82/152): libpsl-0.21.1-6.fc37.aarch64.rpm 8.3 MB/s | 63 kB 00:00 (83/152): libselinux-3.4-5.fc37.aarch64.rpm 11 MB/s | 85 kB 00:00 (84/152): libsigsegv-2.14-3.fc37.aarch64.rpm 9.8 MB/s | 27 kB 00:00 (85/152): libsemanage-3.4-5.fc37.aarch64.rpm 14 MB/s | 116 kB 00:00 (86/152): libsmartcols-2.38.1-1.fc37.aarch64.rp 9.3 MB/s | 63 kB 00:00 (87/152): libsepol-3.4-3.fc37.aarch64.rpm 18 MB/s | 310 kB 00:00 (88/152): libssh-0.9.6-5.fc37.aarch64.rpm 18 MB/s | 202 kB 00:00 (89/152): libssh-config-0.9.6-5.fc37.noarch.rpm 1.4 MB/s | 7.8 kB 00:00 (90/152): libtirpc-1.3.3-0.fc37.aarch64.rpm 16 MB/s | 94 kB 00:00 (91/152): libtasn1-4.18.0-3.fc37.aarch64.rpm 5.8 MB/s | 73 kB 00:00 (92/152): libutempter-1.2.1-7.fc37.aarch64.rpm 4.7 MB/s | 26 kB 00:00 (93/152): libuuid-2.38.1-1.fc37.aarch64.rpm 6.0 MB/s | 28 kB 00:00 (94/152): libunistring-1.0-2.fc37.aarch64.rpm 26 MB/s | 543 kB 00:00 (95/152): libverto-0.3.2-4.fc37.aarch64.rpm 4.1 MB/s | 21 kB 00:00 (96/152): libstdc++-12.1.1-4.fc38.aarch64.rpm 21 MB/s | 760 kB 00:00 (97/152): 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p11-kit-0.24.1-3.fc37.aarch64.rpm 15 MB/s | 361 kB 00:00 (112/152): package-notes-srpm-macros-0.4-16.fc3 3.2 MB/s | 11 kB 00:00 (113/152): pam-libs-1.5.2-14.fc37.aarch64.rpm 6.5 MB/s | 58 kB 00:00 (114/152): patch-2.7.6-17.fc37.aarch64.rpm 11 MB/s | 121 kB 00:00 (115/152): pam-1.5.2-14.fc37.aarch64.rpm 22 MB/s | 567 kB 00:00 (116/152): openssl-libs-3.0.5-2.fc37.aarch64.rp 32 MB/s | 2.0 MB 00:00 (117/152): pcre-8.45-1.fc37.2.aarch64.rpm 11 MB/s | 184 kB 00:00 (118/152): pcre2-10.40-1.fc37.1.aarch64.rpm 14 MB/s | 219 kB 00:00 (119/152): perl-srpm-macros-1-46.fc37.noarch.rp 1.6 MB/s | 8.3 kB 00:00 (120/152): pcre2-syntax-10.40-1.fc37.1.noarch.r 10 MB/s | 142 kB 00:00 (121/152): pkgconf-1.8.0-3.fc37.aarch64.rpm 4.7 MB/s | 41 kB 00:00 (122/152): pkgconf-m4-1.8.0-3.fc37.noarch.rpm 1.8 MB/s | 14 kB 00:00 (123/152): popt-1.19~rc1-3.fc37.aarch64.rpm 12 MB/s | 65 kB 00:00 (124/152): publicsuffix-list-dafsa-20210518-5.f 9.4 MB/s | 58 kB 00:00 (125/152): python-srpm-macros-3.11-4.fc37.noarc 5.6 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(140/152): shadow-utils-4.11.1-4.fc37.aarch64.r 22 MB/s | 1.1 MB 00:00 (141/152): tar-1.34-3.fc36.aarch64.rpm 35 MB/s | 877 kB 00:00 (142/152): unzip-6.0-58.fc37.aarch64.rpm 4.8 MB/s | 182 kB 00:00 (143/152): tzdata-2022b-1.fc38.noarch.rpm 9.4 MB/s | 717 kB 00:00 (144/152): util-linux-core-2.38.1-1.fc37.aarch6 12 MB/s | 471 kB 00:00 (145/152): which-2.21-35.fc37.aarch64.rpm 1.6 MB/s | 41 kB 00:00 (146/152): xxhash-libs-0.8.1-3.fc37.aarch64.rpm 1.2 MB/s | 33 kB 00:00 (147/152): xz-5.2.5-10.fc37.aarch64.rpm 17 MB/s | 223 kB 00:00 (148/152): xz-libs-5.2.5-10.fc37.aarch64.rpm 8.0 MB/s | 90 kB 00:00 (149/152): util-linux-2.38.1-1.fc37.aarch64.rpm 22 MB/s | 2.3 MB 00:00 (150/152): zip-3.0-33.fc37.aarch64.rpm 18 MB/s | 256 kB 00:00 (151/152): zlib-1.2.12-4.fc37.aarch64.rpm 8.1 MB/s | 93 kB 00:00 (152/152): zstd-1.5.2-3.fc37.aarch64.rpm 34 MB/s | 412 kB 00:00 -------------------------------------------------------------------------------- Total 41 MB/s | 50 MB 00:01 fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0xEB10B464: Userid : "Fedora (38) " Fingerprint: 6A51 BBAB BA3D 5467 B617 1221 809A 8D7C EB10 B464 From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-38-primary Key imported successfully fedora 1.6 MB/s | 1.6 kB 00:00 GPG key at file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-38-primary (0xEB10B464) is already installed fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x5323552A: Userid : "Fedora (37) " Fingerprint: ACB5 EE4E 831C 74BB 7C16 8D27 F55A D3FB 5323 552A From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-37-primary Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.18-2.fc37.aarch64 1/1 Preparing : 1/1 Installing : libgcc-12.1.1-4.fc38.aarch64 1/152 Running scriptlet: libgcc-12.1.1-4.fc38.aarch64 1/152 Installing : crypto-policies-20220802-1.gita99dfd2.fc37.noarc 2/152 Running scriptlet: crypto-policies-20220802-1.gita99dfd2.fc37.noarc 2/152 Installing : fedora-release-identity-basic-38-0.2.noarch 3/152 Installing : tzdata-2022b-1.fc38.noarch 4/152 Installing : rust-srpm-macros-22-1.fc37.noarch 5/152 Installing : qt5-srpm-macros-5.15.5-2.fc37.noarch 6/152 Installing : publicsuffix-list-dafsa-20210518-5.fc37.noarch 7/152 Installing : pkgconf-m4-1.8.0-3.fc37.noarch 8/152 Installing : perl-srpm-macros-1-46.fc37.noarch 9/152 Installing : pcre2-syntax-10.40-1.fc37.1.noarch 10/152 Installing : openblas-srpm-macros-2-12.fc37.noarch 11/152 Installing : ocaml-srpm-macros-7-2.fc37.noarch 12/152 Installing : nim-srpm-macros-3-7.fc37.noarch 13/152 Installing : ncurses-base-6.3-3.20220501.fc37.noarch 14/152 Installing : libssh-config-0.9.6-5.fc37.noarch 15/152 Installing : kernel-srpm-macros-1.0-15.fc37.noarch 16/152 Installing : gnat-srpm-macros-4-16.fc37.noarch 17/152 Installing : ghc-srpm-macros-1.5.0-7.fc37.noarch 18/152 Installing : fpc-srpm-macros-1.3-6.fc37.noarch 19/152 Installing : fedora-gpg-keys-38-0.2.noarch 20/152 Installing : fedora-release-38-0.2.noarch 21/152 Installing : fedora-release-common-38-0.2.noarch 22/152 Installing : fedora-repos-rawhide-38-0.2.noarch 23/152 Installing : fedora-repos-38-0.2.noarch 24/152 Installing : setup-2.14.1-2.fc37.noarch 25/152 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.14.1-2.fc37.noarch 25/152 Installing : filesystem-3.18-2.fc37.aarch64 26/152 Installing : basesystem-11-14.fc37.noarch 27/152 Installing : glibc-gconv-extra-2.36-1.fc37.aarch64 28/152 Running scriptlet: glibc-gconv-extra-2.36-1.fc37.aarch64 28/152 Installing : glibc-minimal-langpack-2.36-1.fc37.aarch64 29/152 Installing : glibc-common-2.36-1.fc37.aarch64 30/152 Running scriptlet: glibc-2.36-1.fc37.aarch64 31/152 Installing : glibc-2.36-1.fc37.aarch64 31/152 Running scriptlet: glibc-2.36-1.fc37.aarch64 31/152 Installing : ncurses-libs-6.3-3.20220501.fc37.aarch64 32/152 Installing : bash-5.1.16-3.fc37.aarch64 33/152 Running scriptlet: bash-5.1.16-3.fc37.aarch64 33/152 Installing : zlib-1.2.12-4.fc37.aarch64 34/152 Installing : xz-libs-5.2.5-10.fc37.aarch64 35/152 Installing : bzip2-libs-1.0.8-12.fc37.aarch64 36/152 Installing : elfutils-libelf-0.187-6.fc37.aarch64 37/152 Installing : libstdc++-12.1.1-4.fc38.aarch64 38/152 Installing : libuuid-2.38.1-1.fc37.aarch64 39/152 Installing : libzstd-1.5.2-3.fc37.aarch64 40/152 Installing : popt-1.19~rc1-3.fc37.aarch64 41/152 Installing : libblkid-2.38.1-1.fc37.aarch64 42/152 Installing : readline-8.1-7.fc37.aarch64 43/152 Installing : gmp-1:6.2.1-3.fc37.aarch64 44/152 Installing : libattr-2.5.1-5.fc37.aarch64 45/152 Installing : libacl-2.3.1-4.fc37.aarch64 46/152 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findutils-1:4.9.0-2.fc37.aarch64 103/152 Installing : libmount-2.38.1-1.fc37.aarch64 104/152 Installing : util-linux-core-2.38.1-1.fc37.aarch64 105/152 Installing : libsemanage-3.4-5.fc37.aarch64 106/152 Installing : shadow-utils-2:4.11.1-4.fc37.aarch64 107/152 Running scriptlet: libutempter-1.2.1-7.fc37.aarch64 108/152 Installing : libutempter-1.2.1-7.fc37.aarch64 108/152 Installing : patch-2.7.6-17.fc37.aarch64 109/152 Installing : tar-2:1.34-3.fc36.aarch64 110/152 Installing : xxhash-libs-0.8.1-3.fc37.aarch64 111/152 Installing : coreutils-common-9.1-6.fc37.aarch64 112/152 Installing : openssl-libs-1:3.0.5-2.fc37.aarch64 113/152 Installing : coreutils-9.1-6.fc37.aarch64 114/152 Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch 115/152 Installing : ca-certificates-2022.2.54-5.fc37.noarch 115/152 Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch 115/152 Installing : krb5-libs-1.19.2-11.fc37.1.aarch64 116/152 Installing : libtirpc-1.3.3-0.fc37.aarch64 117/152 Running scriptlet: authselect-libs-1.4.0-3.fc37.aarch64 118/152 Installing : authselect-libs-1.4.0-3.fc37.aarch64 118/152 Installing : gzip-1.12-2.fc37.aarch64 119/152 Installing : cracklib-2.9.6-28.fc36.aarch64 120/152 Installing : libpwquality-1.4.4-11.fc37.aarch64 121/152 Installing : authselect-1.4.0-3.fc37.aarch64 122/152 Installing : libnsl2-2.0.0-4.fc37.aarch64 123/152 Installing : pam-1.5.2-14.fc37.aarch64 124/152 Installing : libssh-0.9.6-5.fc37.aarch64 125/152 Installing : libarchive-3.6.1-2.fc37.aarch64 126/152 Installing : libevent-2.1.12-7.fc37.aarch64 127/152 Installing : openldap-2.6.2-5.fc38.aarch64 128/152 Installing : libcurl-7.84.0-2.fc37.aarch64 129/152 Installing : elfutils-libs-0.187-6.fc37.aarch64 130/152 Installing : elfutils-debuginfod-client-0.187-6.fc37.aarch64 131/152 Installing : binutils-gold-2.38-24.fc38.aarch64 132/152 Installing : binutils-2.38-24.fc38.aarch64 133/152 Running scriptlet: binutils-2.38-24.fc38.aarch64 133/152 Installing : elfutils-0.187-6.fc37.aarch64 134/152 Installing : gdb-minimal-12.1-4.fc37.aarch64 135/152 Installing : debugedit-5.0-5.fc37.aarch64 136/152 Installing : curl-7.84.0-2.fc37.aarch64 137/152 Running scriptlet: rpm-4.18.0-0.beta1.4.fc37.aarch64 138/152 Installing : rpm-4.18.0-0.beta1.4.fc37.aarch64 138/152 Installing : rpm-libs-4.18.0-0.beta1.4.fc37.aarch64 139/152 Installing : rpm-build-libs-4.18.0-0.beta1.4.fc37.aarch64 140/152 Installing : efi-srpm-macros-5-6.fc37.noarch 141/152 Installing : lua-srpm-macros-1-7.fc37.noarch 142/152 Installing : rpmautospec-rpm-macros-0.3.0-1.fc37.noarch 143/152 Installing : ansible-srpm-macros-1-6.fc37.noarch 144/152 Installing : fonts-srpm-macros-1:2.0.5-8.fc37.noarch 145/152 Installing : go-srpm-macros-3.1.0-4.fc37.noarch 146/152 Installing : python-srpm-macros-3.11-4.fc37.noarch 147/152 Installing : redhat-rpm-config-227-1.fc37.noarch 148/152 Installing : rpm-build-4.18.0-0.beta1.4.fc37.aarch64 149/152 Installing : util-linux-2.38.1-1.fc37.aarch64 150/152 Installing : which-2.21-35.fc37.aarch64 151/152 Installing : info-6.8-4.fc37.aarch64 152/152 Running scriptlet: filesystem-3.18-2.fc37.aarch64 152/152 Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch 152/152 Running scriptlet: authselect-libs-1.4.0-3.fc37.aarch64 152/152 Running scriptlet: rpm-4.18.0-0.beta1.4.fc37.aarch64 152/152 Running scriptlet: info-6.8-4.fc37.aarch64 152/152 Verifying : alternatives-1.19-3.fc37.aarch64 1/152 Verifying : ansible-srpm-macros-1-6.fc37.noarch 2/152 Verifying : audit-libs-3.0.8-3.fc37.aarch64 3/152 Verifying : authselect-1.4.0-3.fc37.aarch64 4/152 Verifying : authselect-libs-1.4.0-3.fc37.aarch64 5/152 Verifying : basesystem-11-14.fc37.noarch 6/152 Verifying : bash-5.1.16-3.fc37.aarch64 7/152 Verifying : binutils-2.38-24.fc38.aarch64 8/152 Verifying : binutils-gold-2.38-24.fc38.aarch64 9/152 Verifying : bzip2-1.0.8-12.fc37.aarch64 10/152 Verifying : bzip2-libs-1.0.8-12.fc37.aarch64 11/152 Verifying : ca-certificates-2022.2.54-5.fc37.noarch 12/152 Verifying : coreutils-9.1-6.fc37.aarch64 13/152 Verifying : coreutils-common-9.1-6.fc37.aarch64 14/152 Verifying : cpio-2.13-13.fc37.aarch64 15/152 Verifying : cracklib-2.9.6-28.fc36.aarch64 16/152 Verifying : crypto-policies-20220802-1.gita99dfd2.fc37.noarc 17/152 Verifying : curl-7.84.0-2.fc37.aarch64 18/152 Verifying : cyrus-sasl-lib-2.1.28-7.fc37.aarch64 19/152 Verifying : debugedit-5.0-5.fc37.aarch64 20/152 Verifying : diffutils-3.8-3.fc37.aarch64 21/152 Verifying : dwz-0.14-7.fc37.aarch64 22/152 Verifying : ed-1.18-2.fc37.aarch64 23/152 Verifying : efi-srpm-macros-5-6.fc37.noarch 24/152 Verifying : elfutils-0.187-6.fc37.aarch64 25/152 Verifying : elfutils-debuginfod-client-0.187-6.fc37.aarch64 26/152 Verifying : elfutils-default-yama-scope-0.187-6.fc37.noarch 27/152 Verifying : elfutils-libelf-0.187-6.fc37.aarch64 28/152 Verifying : elfutils-libs-0.187-6.fc37.aarch64 29/152 Verifying : fedora-gpg-keys-38-0.2.noarch 30/152 Verifying : fedora-release-38-0.2.noarch 31/152 Verifying : fedora-release-common-38-0.2.noarch 32/152 Verifying : fedora-release-identity-basic-38-0.2.noarch 33/152 Verifying : fedora-repos-38-0.2.noarch 34/152 Verifying : fedora-repos-rawhide-38-0.2.noarch 35/152 Verifying : file-5.42-4.fc37.aarch64 36/152 Verifying : file-libs-5.42-4.fc37.aarch64 37/152 Verifying : filesystem-3.18-2.fc37.aarch64 38/152 Verifying : findutils-1:4.9.0-2.fc37.aarch64 39/152 Verifying : fonts-srpm-macros-1:2.0.5-8.fc37.noarch 40/152 Verifying : fpc-srpm-macros-1.3-6.fc37.noarch 41/152 Verifying : gawk-5.1.1-4.fc37.aarch64 42/152 Verifying : gdb-minimal-12.1-4.fc37.aarch64 43/152 Verifying : gdbm-libs-1:1.23-2.fc37.aarch64 44/152 Verifying : ghc-srpm-macros-1.5.0-7.fc37.noarch 45/152 Verifying : glibc-2.36-1.fc37.aarch64 46/152 Verifying : glibc-common-2.36-1.fc37.aarch64 47/152 Verifying : glibc-gconv-extra-2.36-1.fc37.aarch64 48/152 Verifying : glibc-minimal-langpack-2.36-1.fc37.aarch64 49/152 Verifying : gmp-1:6.2.1-3.fc37.aarch64 50/152 Verifying : gnat-srpm-macros-4-16.fc37.noarch 51/152 Verifying : go-srpm-macros-3.1.0-4.fc37.noarch 52/152 Verifying : grep-3.7-4.fc37.aarch64 53/152 Verifying : gzip-1.12-2.fc37.aarch64 54/152 Verifying : info-6.8-4.fc37.aarch64 55/152 Verifying : jansson-2.13.1-5.fc37.aarch64 56/152 Verifying : kernel-srpm-macros-1.0-15.fc37.noarch 57/152 Verifying : keyutils-libs-1.6.1-5.fc37.aarch64 58/152 Verifying : krb5-libs-1.19.2-11.fc37.1.aarch64 59/152 Verifying : libacl-2.3.1-4.fc37.aarch64 60/152 Verifying : libarchive-3.6.1-2.fc37.aarch64 61/152 Verifying : libattr-2.5.1-5.fc37.aarch64 62/152 Verifying : libblkid-2.38.1-1.fc37.aarch64 63/152 Verifying : libbrotli-1.0.9-9.fc37.aarch64 64/152 Verifying : libcap-2.48-5.fc37.aarch64 65/152 Verifying : libcap-ng-0.8.3-3.fc37.aarch64 66/152 Verifying : libcom_err-1.46.5-3.fc37.aarch64 67/152 Verifying : libcurl-7.84.0-2.fc37.aarch64 68/152 Verifying : libdb-5.3.28-53.fc37.aarch64 69/152 Verifying : libeconf-0.4.0-4.fc37.aarch64 70/152 Verifying : libevent-2.1.12-7.fc37.aarch64 71/152 Verifying : libfdisk-2.38.1-1.fc37.aarch64 72/152 Verifying : libffi-3.4.2-9.fc37.aarch64 73/152 Verifying : libgcc-12.1.1-4.fc38.aarch64 74/152 Verifying : libgomp-12.1.1-4.fc38.aarch64 75/152 Verifying : libidn2-2.3.3-2.fc37.aarch64 76/152 Verifying : libmount-2.38.1-1.fc37.aarch64 77/152 Verifying : libnghttp2-1.48.0-2.fc37.aarch64 78/152 Verifying : libnsl2-2.0.0-4.fc37.aarch64 79/152 Verifying : libpkgconf-1.8.0-3.fc37.aarch64 80/152 Verifying : libpsl-0.21.1-6.fc37.aarch64 81/152 Verifying : libpwquality-1.4.4-11.fc37.aarch64 82/152 Verifying : libselinux-3.4-5.fc37.aarch64 83/152 Verifying : libsemanage-3.4-5.fc37.aarch64 84/152 Verifying : libsepol-3.4-3.fc37.aarch64 85/152 Verifying : libsigsegv-2.14-3.fc37.aarch64 86/152 Verifying : libsmartcols-2.38.1-1.fc37.aarch64 87/152 Verifying : libssh-0.9.6-5.fc37.aarch64 88/152 Verifying : libssh-config-0.9.6-5.fc37.noarch 89/152 Verifying : libstdc++-12.1.1-4.fc38.aarch64 90/152 Verifying : libtasn1-4.18.0-3.fc37.aarch64 91/152 Verifying : libtirpc-1.3.3-0.fc37.aarch64 92/152 Verifying : libunistring-1.0-2.fc37.aarch64 93/152 Verifying : libutempter-1.2.1-7.fc37.aarch64 94/152 Verifying : libuuid-2.38.1-1.fc37.aarch64 95/152 Verifying : libverto-0.3.2-4.fc37.aarch64 96/152 Verifying : libxcrypt-4.4.28-3.fc38.aarch64 97/152 Verifying : libxml2-2.9.14-3.fc37.aarch64 98/152 Verifying : libzstd-1.5.2-3.fc37.aarch64 99/152 Verifying : lua-libs-5.4.4-4.fc37.aarch64 100/152 Verifying : lua-srpm-macros-1-7.fc37.noarch 101/152 Verifying : lz4-libs-1.9.3-5.fc37.aarch64 102/152 Verifying : mpfr-4.1.0-10.fc37.aarch64 103/152 Verifying : ncurses-base-6.3-3.20220501.fc37.noarch 104/152 Verifying : ncurses-libs-6.3-3.20220501.fc37.aarch64 105/152 Verifying : nim-srpm-macros-3-7.fc37.noarch 106/152 Verifying : ocaml-srpm-macros-7-2.fc37.noarch 107/152 Verifying : openblas-srpm-macros-2-12.fc37.noarch 108/152 Verifying : openldap-2.6.2-5.fc38.aarch64 109/152 Verifying : openssl-libs-1:3.0.5-2.fc37.aarch64 110/152 Verifying : p11-kit-0.24.1-3.fc37.aarch64 111/152 Verifying : p11-kit-trust-0.24.1-3.fc37.aarch64 112/152 Verifying : package-notes-srpm-macros-0.4-16.fc37.noarch 113/152 Verifying : pam-1.5.2-14.fc37.aarch64 114/152 Verifying : pam-libs-1.5.2-14.fc37.aarch64 115/152 Verifying : patch-2.7.6-17.fc37.aarch64 116/152 Verifying : pcre-8.45-1.fc37.2.aarch64 117/152 Verifying : pcre2-10.40-1.fc37.1.aarch64 118/152 Verifying : pcre2-syntax-10.40-1.fc37.1.noarch 119/152 Verifying : perl-srpm-macros-1-46.fc37.noarch 120/152 Verifying : pkgconf-1.8.0-3.fc37.aarch64 121/152 Verifying : pkgconf-m4-1.8.0-3.fc37.noarch 122/152 Verifying : pkgconf-pkg-config-1.8.0-3.fc37.aarch64 123/152 Verifying : popt-1.19~rc1-3.fc37.aarch64 124/152 Verifying : publicsuffix-list-dafsa-20210518-5.fc37.noarch 125/152 Verifying : python-srpm-macros-3.11-4.fc37.noarch 126/152 Verifying : qt5-srpm-macros-5.15.5-2.fc37.noarch 127/152 Verifying : readline-8.1-7.fc37.aarch64 128/152 Verifying : redhat-rpm-config-227-1.fc37.noarch 129/152 Verifying : rpm-4.18.0-0.beta1.4.fc37.aarch64 130/152 Verifying : rpm-build-4.18.0-0.beta1.4.fc37.aarch64 131/152 Verifying : rpm-build-libs-4.18.0-0.beta1.4.fc37.aarch64 132/152 Verifying : rpm-libs-4.18.0-0.beta1.4.fc37.aarch64 133/152 Verifying : rpmautospec-rpm-macros-0.3.0-1.fc37.noarch 134/152 Verifying : rust-srpm-macros-22-1.fc37.noarch 135/152 Verifying : sed-4.8-11.fc37.aarch64 136/152 Verifying : setup-2.14.1-2.fc37.noarch 137/152 Verifying : shadow-utils-2:4.11.1-4.fc37.aarch64 138/152 Verifying : sqlite-libs-3.39.2-2.fc37.aarch64 139/152 Verifying : systemd-libs-251.4-51.fc37.aarch64 140/152 Verifying : tar-2:1.34-3.fc36.aarch64 141/152 Verifying : tzdata-2022b-1.fc38.noarch 142/152 Verifying : unzip-6.0-58.fc37.aarch64 143/152 Verifying : util-linux-2.38.1-1.fc37.aarch64 144/152 Verifying : util-linux-core-2.38.1-1.fc37.aarch64 145/152 Verifying : which-2.21-35.fc37.aarch64 146/152 Verifying : xxhash-libs-0.8.1-3.fc37.aarch64 147/152 Verifying : xz-5.2.5-10.fc37.aarch64 148/152 Verifying : xz-libs-5.2.5-10.fc37.aarch64 149/152 Verifying : zip-3.0-33.fc37.aarch64 150/152 Verifying : zlib-1.2.12-4.fc37.aarch64 151/152 Verifying : zstd-1.5.2-3.fc37.aarch64 152/152 Installed products updated. Installed: alternatives-1.19-3.fc37.aarch64 ansible-srpm-macros-1-6.fc37.noarch audit-libs-3.0.8-3.fc37.aarch64 authselect-1.4.0-3.fc37.aarch64 authselect-libs-1.4.0-3.fc37.aarch64 basesystem-11-14.fc37.noarch bash-5.1.16-3.fc37.aarch64 binutils-2.38-24.fc38.aarch64 binutils-gold-2.38-24.fc38.aarch64 bzip2-1.0.8-12.fc37.aarch64 bzip2-libs-1.0.8-12.fc37.aarch64 ca-certificates-2022.2.54-5.fc37.noarch coreutils-9.1-6.fc37.aarch64 coreutils-common-9.1-6.fc37.aarch64 cpio-2.13-13.fc37.aarch64 cracklib-2.9.6-28.fc36.aarch64 crypto-policies-20220802-1.gita99dfd2.fc37.noarch curl-7.84.0-2.fc37.aarch64 cyrus-sasl-lib-2.1.28-7.fc37.aarch64 debugedit-5.0-5.fc37.aarch64 diffutils-3.8-3.fc37.aarch64 dwz-0.14-7.fc37.aarch64 ed-1.18-2.fc37.aarch64 efi-srpm-macros-5-6.fc37.noarch elfutils-0.187-6.fc37.aarch64 elfutils-debuginfod-client-0.187-6.fc37.aarch64 elfutils-default-yama-scope-0.187-6.fc37.noarch elfutils-libelf-0.187-6.fc37.aarch64 elfutils-libs-0.187-6.fc37.aarch64 fedora-gpg-keys-38-0.2.noarch fedora-release-38-0.2.noarch fedora-release-common-38-0.2.noarch fedora-release-identity-basic-38-0.2.noarch fedora-repos-38-0.2.noarch fedora-repos-rawhide-38-0.2.noarch file-5.42-4.fc37.aarch64 file-libs-5.42-4.fc37.aarch64 filesystem-3.18-2.fc37.aarch64 findutils-1:4.9.0-2.fc37.aarch64 fonts-srpm-macros-1:2.0.5-8.fc37.noarch fpc-srpm-macros-1.3-6.fc37.noarch gawk-5.1.1-4.fc37.aarch64 gdb-minimal-12.1-4.fc37.aarch64 gdbm-libs-1:1.23-2.fc37.aarch64 ghc-srpm-macros-1.5.0-7.fc37.noarch glibc-2.36-1.fc37.aarch64 glibc-common-2.36-1.fc37.aarch64 glibc-gconv-extra-2.36-1.fc37.aarch64 glibc-minimal-langpack-2.36-1.fc37.aarch64 gmp-1:6.2.1-3.fc37.aarch64 gnat-srpm-macros-4-16.fc37.noarch go-srpm-macros-3.1.0-4.fc37.noarch grep-3.7-4.fc37.aarch64 gzip-1.12-2.fc37.aarch64 info-6.8-4.fc37.aarch64 jansson-2.13.1-5.fc37.aarch64 kernel-srpm-macros-1.0-15.fc37.noarch keyutils-libs-1.6.1-5.fc37.aarch64 krb5-libs-1.19.2-11.fc37.1.aarch64 libacl-2.3.1-4.fc37.aarch64 libarchive-3.6.1-2.fc37.aarch64 libattr-2.5.1-5.fc37.aarch64 libblkid-2.38.1-1.fc37.aarch64 libbrotli-1.0.9-9.fc37.aarch64 libcap-2.48-5.fc37.aarch64 libcap-ng-0.8.3-3.fc37.aarch64 libcom_err-1.46.5-3.fc37.aarch64 libcurl-7.84.0-2.fc37.aarch64 libdb-5.3.28-53.fc37.aarch64 libeconf-0.4.0-4.fc37.aarch64 libevent-2.1.12-7.fc37.aarch64 libfdisk-2.38.1-1.fc37.aarch64 libffi-3.4.2-9.fc37.aarch64 libgcc-12.1.1-4.fc38.aarch64 libgomp-12.1.1-4.fc38.aarch64 libidn2-2.3.3-2.fc37.aarch64 libmount-2.38.1-1.fc37.aarch64 libnghttp2-1.48.0-2.fc37.aarch64 libnsl2-2.0.0-4.fc37.aarch64 libpkgconf-1.8.0-3.fc37.aarch64 libpsl-0.21.1-6.fc37.aarch64 libpwquality-1.4.4-11.fc37.aarch64 libselinux-3.4-5.fc37.aarch64 libsemanage-3.4-5.fc37.aarch64 libsepol-3.4-3.fc37.aarch64 libsigsegv-2.14-3.fc37.aarch64 libsmartcols-2.38.1-1.fc37.aarch64 libssh-0.9.6-5.fc37.aarch64 libssh-config-0.9.6-5.fc37.noarch libstdc++-12.1.1-4.fc38.aarch64 libtasn1-4.18.0-3.fc37.aarch64 libtirpc-1.3.3-0.fc37.aarch64 libunistring-1.0-2.fc37.aarch64 libutempter-1.2.1-7.fc37.aarch64 libuuid-2.38.1-1.fc37.aarch64 libverto-0.3.2-4.fc37.aarch64 libxcrypt-4.4.28-3.fc38.aarch64 libxml2-2.9.14-3.fc37.aarch64 libzstd-1.5.2-3.fc37.aarch64 lua-libs-5.4.4-4.fc37.aarch64 lua-srpm-macros-1-7.fc37.noarch lz4-libs-1.9.3-5.fc37.aarch64 mpfr-4.1.0-10.fc37.aarch64 ncurses-base-6.3-3.20220501.fc37.noarch ncurses-libs-6.3-3.20220501.fc37.aarch64 nim-srpm-macros-3-7.fc37.noarch ocaml-srpm-macros-7-2.fc37.noarch openblas-srpm-macros-2-12.fc37.noarch openldap-2.6.2-5.fc38.aarch64 openssl-libs-1:3.0.5-2.fc37.aarch64 p11-kit-0.24.1-3.fc37.aarch64 p11-kit-trust-0.24.1-3.fc37.aarch64 package-notes-srpm-macros-0.4-16.fc37.noarch pam-1.5.2-14.fc37.aarch64 pam-libs-1.5.2-14.fc37.aarch64 patch-2.7.6-17.fc37.aarch64 pcre-8.45-1.fc37.2.aarch64 pcre2-10.40-1.fc37.1.aarch64 pcre2-syntax-10.40-1.fc37.1.noarch perl-srpm-macros-1-46.fc37.noarch pkgconf-1.8.0-3.fc37.aarch64 pkgconf-m4-1.8.0-3.fc37.noarch pkgconf-pkg-config-1.8.0-3.fc37.aarch64 popt-1.19~rc1-3.fc37.aarch64 publicsuffix-list-dafsa-20210518-5.fc37.noarch python-srpm-macros-3.11-4.fc37.noarch qt5-srpm-macros-5.15.5-2.fc37.noarch readline-8.1-7.fc37.aarch64 redhat-rpm-config-227-1.fc37.noarch rpm-4.18.0-0.beta1.4.fc37.aarch64 rpm-build-4.18.0-0.beta1.4.fc37.aarch64 rpm-build-libs-4.18.0-0.beta1.4.fc37.aarch64 rpm-libs-4.18.0-0.beta1.4.fc37.aarch64 rpmautospec-rpm-macros-0.3.0-1.fc37.noarch rust-srpm-macros-22-1.fc37.noarch sed-4.8-11.fc37.aarch64 setup-2.14.1-2.fc37.noarch shadow-utils-2:4.11.1-4.fc37.aarch64 sqlite-libs-3.39.2-2.fc37.aarch64 systemd-libs-251.4-51.fc37.aarch64 tar-2:1.34-3.fc36.aarch64 tzdata-2022b-1.fc38.noarch unzip-6.0-58.fc37.aarch64 util-linux-2.38.1-1.fc37.aarch64 util-linux-core-2.38.1-1.fc37.aarch64 which-2.21-35.fc37.aarch64 xxhash-libs-0.8.1-3.fc37.aarch64 xz-5.2.5-10.fc37.aarch64 xz-libs-5.2.5-10.fc37.aarch64 zip-3.0-33.fc37.aarch64 zlib-1.2.12-4.fc37.aarch64 zstd-1.5.2-3.fc37.aarch64 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: fedora-release-identity-basic-38-0.2.noarch libacl-2.3.1-4.fc37.aarch64 openssl-libs-3.0.5-2.fc37.aarch64 zlib-1.2.12-4.fc37.aarch64 libmount-2.38.1-1.fc37.aarch64 libcom_err-1.46.5-3.fc37.aarch64 grep-3.7-4.fc37.aarch64 ncurses-libs-6.3-3.20220501.fc37.aarch64 libnsl2-2.0.0-4.fc37.aarch64 rpmautospec-rpm-macros-0.3.0-1.fc37.noarch nim-srpm-macros-3-7.fc37.noarch libeconf-0.4.0-4.fc37.aarch64 authselect-1.4.0-3.fc37.aarch64 qt5-srpm-macros-5.15.5-2.fc37.noarch libsigsegv-2.14-3.fc37.aarch64 popt-1.19~rc1-3.fc37.aarch64 pcre2-syntax-10.40-1.fc37.1.noarch lua-srpm-macros-1-7.fc37.noarch binutils-2.38-24.fc38.aarch64 rust-srpm-macros-22-1.fc37.noarch ncurses-base-6.3-3.20220501.fc37.noarch gmp-6.2.1-3.fc37.aarch64 curl-7.84.0-2.fc37.aarch64 zstd-1.5.2-3.fc37.aarch64 ocaml-srpm-macros-7-2.fc37.noarch file-libs-5.42-4.fc37.aarch64 libevent-2.1.12-7.fc37.aarch64 setup-2.14.1-2.fc37.noarch pcre-8.45-1.fc37.2.aarch64 tzdata-2022b-1.fc38.noarch fedora-repos-38-0.2.noarch lua-libs-5.4.4-4.fc37.aarch64 systemd-libs-251.4-51.fc37.aarch64 coreutils-common-9.1-6.fc37.aarch64 libuuid-2.38.1-1.fc37.aarch64 libcurl-7.84.0-2.fc37.aarch64 ed-1.18-2.fc37.aarch64 gdbm-libs-1.23-2.fc37.aarch64 redhat-rpm-config-227-1.fc37.noarch libxml2-2.9.14-3.fc37.aarch64 libsmartcols-2.38.1-1.fc37.aarch64 libnghttp2-1.48.0-2.fc37.aarch64 libselinux-3.4-5.fc37.aarch64 libtirpc-1.3.3-0.fc37.aarch64 libzstd-1.5.2-3.fc37.aarch64 fedora-release-38-0.2.noarch info-6.8-4.fc37.aarch64 openldap-2.6.2-5.fc38.aarch64 pkgconf-pkg-config-1.8.0-3.fc37.aarch64 libblkid-2.38.1-1.fc37.aarch64 p11-kit-0.24.1-3.fc37.aarch64 gzip-1.12-2.fc37.aarch64 gpg-pubkey-eb10b464-6202d9c6 pkgconf-m4-1.8.0-3.fc37.noarch sqlite-libs-3.39.2-2.fc37.aarch64 mpfr-4.1.0-10.fc37.aarch64 publicsuffix-list-dafsa-20210518-5.fc37.noarch authselect-libs-1.4.0-3.fc37.aarch64 glibc-gconv-extra-2.36-1.fc37.aarch64 elfutils-libs-0.187-6.fc37.aarch64 libutempter-1.2.1-7.fc37.aarch64 libdb-5.3.28-53.fc37.aarch64 libstdc++-12.1.1-4.fc38.aarch64 libsepol-3.4-3.fc37.aarch64 sed-4.8-11.fc37.aarch64 util-linux-core-2.38.1-1.fc37.aarch64 libssh-0.9.6-5.fc37.aarch64 glibc-minimal-langpack-2.36-1.fc37.aarch64 glibc-common-2.36-1.fc37.aarch64 alternatives-1.19-3.fc37.aarch64 jansson-2.13.1-5.fc37.aarch64 libidn2-2.3.3-2.fc37.aarch64 pkgconf-1.8.0-3.fc37.aarch64 file-5.42-4.fc37.aarch64 ghc-srpm-macros-1.5.0-7.fc37.noarch pam-1.5.2-14.fc37.aarch64 ca-certificates-2022.2.54-5.fc37.noarch rpm-4.18.0-0.beta1.4.fc37.aarch64 libarchive-3.6.1-2.fc37.aarch64 pam-libs-1.5.2-14.fc37.aarch64 libgomp-12.1.1-4.fc38.aarch64 libpkgconf-1.8.0-3.fc37.aarch64 filesystem-3.18-2.fc37.aarch64 package-notes-srpm-macros-0.4-16.fc37.noarch libgcc-12.1.1-4.fc38.aarch64 libcap-2.48-5.fc37.aarch64 cpio-2.13-13.fc37.aarch64 crypto-policies-20220802-1.gita99dfd2.fc37.noarch efi-srpm-macros-5-6.fc37.noarch rpm-libs-4.18.0-0.beta1.4.fc37.aarch64 fedora-gpg-keys-38-0.2.noarch kernel-srpm-macros-1.0-15.fc37.noarch gnat-srpm-macros-4-16.fc37.noarch zip-3.0-33.fc37.aarch64 python-srpm-macros-3.11-4.fc37.noarch gpg-pubkey-5323552a-6112bcdc readline-8.1-7.fc37.aarch64 krb5-libs-1.19.2-11.fc37.1.aarch64 cracklib-2.9.6-28.fc36.aarch64 libattr-2.5.1-5.fc37.aarch64 libfdisk-2.38.1-1.fc37.aarch64 libffi-3.4.2-9.fc37.aarch64 util-linux-2.38.1-1.fc37.aarch64 libssh-config-0.9.6-5.fc37.noarch p11-kit-trust-0.24.1-3.fc37.aarch64 xz-5.2.5-10.fc37.aarch64 rpm-build-libs-4.18.0-0.beta1.4.fc37.aarch64 ansible-srpm-macros-1-6.fc37.noarch keyutils-libs-1.6.1-5.fc37.aarch64 libtasn1-4.18.0-3.fc37.aarch64 libbrotli-1.0.9-9.fc37.aarch64 binutils-gold-2.38-24.fc38.aarch64 libsemanage-3.4-5.fc37.aarch64 elfutils-libelf-0.187-6.fc37.aarch64 libpwquality-1.4.4-11.fc37.aarch64 fedora-release-common-38-0.2.noarch elfutils-0.187-6.fc37.aarch64 which-2.21-35.fc37.aarch64 libunistring-1.0-2.fc37.aarch64 gawk-5.1.1-4.fc37.aarch64 patch-2.7.6-17.fc37.aarch64 xxhash-libs-0.8.1-3.fc37.aarch64 elfutils-debuginfod-client-0.187-6.fc37.aarch64 gdb-minimal-12.1-4.fc37.aarch64 go-srpm-macros-3.1.0-4.fc37.noarch lz4-libs-1.9.3-5.fc37.aarch64 cyrus-sasl-lib-2.1.28-7.fc37.aarch64 fonts-srpm-macros-2.0.5-8.fc37.noarch debugedit-5.0-5.fc37.aarch64 bash-5.1.16-3.fc37.aarch64 xz-libs-5.2.5-10.fc37.aarch64 findutils-4.9.0-2.fc37.aarch64 glibc-2.36-1.fc37.aarch64 bzip2-1.0.8-12.fc37.aarch64 tar-1.34-3.fc36.aarch64 fpc-srpm-macros-1.3-6.fc37.noarch elfutils-default-yama-scope-0.187-6.fc37.noarch basesystem-11-14.fc37.noarch shadow-utils-4.11.1-4.fc37.aarch64 audit-libs-3.0.8-3.fc37.aarch64 dwz-0.14-7.fc37.aarch64 fedora-repos-rawhide-38-0.2.noarch openblas-srpm-macros-2-12.fc37.noarch libcap-ng-0.8.3-3.fc37.aarch64 perl-srpm-macros-1-46.fc37.noarch diffutils-3.8-3.fc37.aarch64 pcre2-10.40-1.fc37.1.aarch64 rpm-build-4.18.0-0.beta1.4.fc37.aarch64 libverto-0.3.2-4.fc37.aarch64 libxcrypt-4.4.28-3.fc38.aarch64 libpsl-0.21.1-6.fc37.aarch64 unzip-6.0-58.fc37.aarch64 bzip2-libs-1.0.8-12.fc37.aarch64 coreutils-9.1-6.fc37.aarch64 Start: buildsrpm Start: rpmbuild -bs Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1660521600 Wrote: /builddir/build/SRPMS/samtools-1.15.1-1.fc38.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-aarch64-1660573597.814740/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-aarch64-1660573597.814740/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-aarch64-1660573597.814740/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-r8vkqrej/samtools/samtools.spec) Config(child) 1 minutes 12 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/samtools-1.15.1-1.fc38.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1660573597.814740 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.1 starting (python version = 3.10.4, NVR = mock-3.1-1.fc35)... 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/samtools-1.15.1-1.fc38.src.rpm) Config(fedora-rawhide-aarch64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1660573597.814740/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: 3.1 INFO: Mock Version: 3.1 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 24 kB/s | 3.3 kB 00:00 fedora 180 kB/s | 13 kB 00:00 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for samtools-1.15.1-1.fc38.src.rpm Start: build setup for samtools-1.15.1-1.fc38.src.rpm Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1660521600 Wrote: /builddir/build/SRPMS/samtools-1.15.1-1.fc38.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 116 kB/s | 3.3 kB 00:00 fedora 159 kB/s | 13 kB 00:00 Dependencies resolved. ================================================================================ Package Arch Version Repository Size ================================================================================ Installing: gcc aarch64 12.1.1-4.fc38 fedora 29 M htslib-devel aarch64 1.15.1-1.fc38 copr_base 100 k htslib-tools aarch64 1.15.1-1.fc38 copr_base 533 k make aarch64 1:4.3-11.fc37 fedora 537 k ncurses-devel aarch64 6.3-3.20220501.fc37 fedora 547 k perl-FindBin noarch 1.53-491.fc37 fedora 18 k perl-Getopt-Long noarch 1:2.52-489.fc37 fedora 60 k perl-interpreter aarch64 4:5.36.0-491.fc37 fedora 76 k perl-lib aarch64 0.65-491.fc37 fedora 19 k zlib-devel aarch64 1.2.12-4.fc37 fedora 44 k Installing dependencies: annobin-docs noarch 10.81-1.fc38 fedora 91 k annobin-plugin-gcc aarch64 10.81-1.fc38 fedora 882 k cpp aarch64 12.1.1-4.fc38 fedora 9.2 M gc aarch64 8.0.6-4.fc37 fedora 102 k gcc-plugin-annobin aarch64 12.1.1-4.fc38 fedora 50 k glibc-devel aarch64 2.36-1.fc37 fedora 583 k groff-base aarch64 1.22.4-10.fc37 fedora 1.0 M guile22 aarch64 2.2.7-6.fc37 fedora 6.5 M htslib aarch64 1.15.1-1.fc38 copr_base 478 k kernel-headers aarch64 5.19.0-1.fc37 fedora 1.5 M libasan aarch64 12.1.1-4.fc38 fedora 421 k libatomic aarch64 12.1.1-4.fc38 fedora 41 k libmpc aarch64 1.2.1-5.fc37 fedora 62 k libtool-ltdl aarch64 2.4.7-2.fc37 fedora 37 k libubsan aarch64 12.1.1-4.fc38 fedora 190 k libxcrypt-devel aarch64 4.4.28-3.fc38 fedora 28 k ncurses aarch64 6.3-3.20220501.fc37 fedora 409 k ncurses-c++-libs aarch64 6.3-3.20220501.fc37 fedora 36 k perl-Carp noarch 1.52-489.fc37 fedora 29 k perl-Class-Struct noarch 0.66-491.fc37 fedora 26 k perl-DynaLoader aarch64 1.52-491.fc37 fedora 30 k perl-Encode aarch64 4:3.19-491.fc37 fedora 1.7 M perl-Errno aarch64 1.36-491.fc37 fedora 19 k perl-Exporter noarch 5.77-489.fc37 fedora 31 k perl-Fcntl aarch64 1.15-491.fc37 fedora 25 k perl-File-Basename noarch 2.85-491.fc37 fedora 22 k perl-File-Path noarch 2.18-489.fc37 fedora 35 k perl-File-Temp noarch 1:0.231.100-489.fc37 fedora 59 k perl-File-stat noarch 1.12-491.fc37 fedora 22 k perl-Getopt-Std noarch 1.13-491.fc37 fedora 20 k perl-HTTP-Tiny noarch 0.082-1.fc37 fedora 55 k perl-IO aarch64 1.50-491.fc37 fedora 96 k perl-IPC-Open3 noarch 1.22-491.fc37 fedora 27 k perl-MIME-Base64 aarch64 3.16-489.fc37 fedora 30 k perl-POSIX aarch64 2.03-491.fc37 fedora 102 k perl-PathTools aarch64 3.84-489.fc37 fedora 90 k perl-Pod-Escapes noarch 1:1.07-489.fc37 fedora 20 k perl-Pod-Perldoc noarch 3.28.01-490.fc37 fedora 90 k perl-Pod-Simple noarch 1:3.43-490.fc37 fedora 225 k perl-Pod-Usage noarch 4:2.03-3.fc37 fedora 40 k perl-Scalar-List-Utils aarch64 5:1.63-489.fc38 fedora 71 k perl-SelectSaver noarch 1.02-491.fc37 fedora 16 k perl-Socket aarch64 4:2.035-2.fc37 fedora 55 k perl-Storable aarch64 1:3.26-489.fc37 fedora 95 k perl-Symbol noarch 1.09-491.fc37 fedora 19 k perl-Term-ANSIColor noarch 5.01-490.fc37 fedora 48 k perl-Term-Cap noarch 1.17-489.fc37 fedora 22 k perl-Text-ParseWords noarch 3.31-489.fc37 fedora 16 k perl-Text-Tabs+Wrap noarch 2021.0814-489.fc37 fedora 22 k perl-Time-Local noarch 2:1.300-489.fc37 fedora 33 k perl-constant noarch 1.33-490.fc37 fedora 23 k perl-if noarch 0.61.000-491.fc37 fedora 18 k perl-libs aarch64 4:5.36.0-491.fc37 fedora 2.2 M perl-mro aarch64 1.26-491.fc37 fedora 33 k perl-overload noarch 1.35-491.fc37 fedora 50 k perl-overloading noarch 0.02-491.fc37 fedora 17 k perl-parent noarch 1:0.238-489.fc37 fedora 14 k perl-podlators noarch 1:4.14-489.fc37 fedora 116 k perl-subs noarch 1.04-491.fc37 fedora 16 k perl-vars noarch 1.05-491.fc37 fedora 17 k Transaction Summary ================================================================================ Install 70 Packages Total download size: 58 M Installed size: 192 M Downloading Packages: (1/70): htslib-1.15.1-1.fc38.aarch64.rpm 8.4 MB/s | 478 kB 00:00 (2/70): htslib-devel-1.15.1-1.fc38.aarch64.rpm 1.3 MB/s | 100 kB 00:00 (3/70): htslib-tools-1.15.1-1.fc38.aarch64.rpm 6.7 MB/s | 533 kB 00:00 (4/70): annobin-docs-10.81-1.fc38.noarch.rpm 2.8 MB/s | 91 kB 00:00 (5/70): gc-8.0.6-4.fc37.aarch64.rpm 17 MB/s | 102 kB 00:00 (6/70): annobin-plugin-gcc-10.81-1.fc38.aarch64 16 MB/s | 882 kB 00:00 (7/70): gcc-plugin-annobin-12.1.1-4.fc38.aarch6 10 MB/s | 50 kB 00:00 (8/70): glibc-devel-2.36-1.fc37.aarch64.rpm 24 MB/s | 583 kB 00:00 (9/70): groff-base-1.22.4-10.fc37.aarch64.rpm 15 MB/s | 1.0 MB 00:00 (10/70): guile22-2.2.7-6.fc37.aarch64.rpm 39 MB/s | 6.5 MB 00:00 (11/70): kernel-headers-5.19.0-1.fc37.aarch64.r 28 MB/s | 1.5 MB 00:00 (12/70): libasan-12.1.1-4.fc38.aarch64.rpm 19 MB/s | 421 kB 00:00 (13/70): cpp-12.1.1-4.fc38.aarch64.rpm 21 MB/s | 9.2 MB 00:00 (14/70): libatomic-12.1.1-4.fc38.aarch64.rpm 1.4 MB/s | 41 kB 00:00 (15/70): libtool-ltdl-2.4.7-2.fc37.aarch64.rpm 8.4 MB/s | 37 kB 00:00 (16/70): libmpc-1.2.1-5.fc37.aarch64.rpm 8.3 MB/s | 62 kB 00:00 (17/70): libxcrypt-devel-4.4.28-3.fc38.aarch64. 5.5 MB/s | 28 kB 00:00 (18/70): make-4.3-11.fc37.aarch64.rpm 17 MB/s | 537 kB 00:00 (19/70): libubsan-12.1.1-4.fc38.aarch64.rpm 3.3 MB/s | 190 kB 00:00 (20/70): ncurses-6.3-3.20220501.fc37.aarch64.rp 20 MB/s | 409 kB 00:00 (21/70): ncurses-c++-libs-6.3-3.20220501.fc37.a 4.0 MB/s | 36 kB 00:00 (22/70): perl-Carp-1.52-489.fc37.noarch.rpm 4.2 MB/s | 29 kB 00:00 (23/70): ncurses-devel-6.3-3.20220501.fc37.aarc 34 MB/s | 547 kB 00:00 (24/70): perl-Class-Struct-0.66-491.fc37.noarch 3.3 MB/s | 26 kB 00:00 (25/70): perl-DynaLoader-1.52-491.fc37.aarch64. 3.4 MB/s | 30 kB 00:00 (26/70): perl-Errno-1.36-491.fc37.aarch64.rpm 3.0 MB/s | 19 kB 00:00 (27/70): perl-Exporter-5.77-489.fc37.noarch.rpm 4.8 MB/s | 31 kB 00:00 (28/70): perl-Fcntl-1.15-491.fc37.aarch64.rpm 4.7 MB/s | 25 kB 00:00 (29/70): perl-File-Basename-2.85-491.fc37.noarc 1.4 MB/s | 22 kB 00:00 (30/70): perl-File-Path-2.18-489.fc37.noarch.rp 3.8 MB/s | 35 kB 00:00 (31/70): perl-Encode-3.19-491.fc37.aarch64.rpm 27 MB/s | 1.7 MB 00:00 (32/70): perl-File-Temp-0.231.100-489.fc37.noar 6.0 MB/s | 59 kB 00:00 (33/70): perl-FindBin-1.53-491.fc37.noarch.rpm 3.4 MB/s | 18 kB 00:00 (34/70): perl-File-stat-1.12-491.fc37.noarch.rp 2.8 MB/s | 22 kB 00:00 (35/70): perl-Getopt-Long-2.52-489.fc37.noarch. 15 MB/s | 60 kB 00:00 (36/70): perl-Getopt-Std-1.13-491.fc37.noarch.r 4.6 MB/s | 20 kB 00:00 (37/70): perl-HTTP-Tiny-0.082-1.fc37.noarch.rpm 8.6 MB/s | 55 kB 00:00 (38/70): perl-IO-1.50-491.fc37.aarch64.rpm 13 MB/s | 96 kB 00:00 (39/70): perl-MIME-Base64-3.16-489.fc37.aarch64 6.5 MB/s | 30 kB 00:00 (40/70): perl-IPC-Open3-1.22-491.fc37.noarch.rp 1.9 MB/s | 27 kB 00:00 (41/70): perl-PathTools-3.84-489.fc37.aarch64.r 15 MB/s | 90 kB 00:00 (42/70): perl-POSIX-2.03-491.fc37.aarch64.rpm 4.8 MB/s | 102 kB 00:00 (43/70): perl-Pod-Escapes-1.07-489.fc37.noarch. 2.1 MB/s | 20 kB 00:00 (44/70): perl-Pod-Perldoc-3.28.01-490.fc37.noar 10 MB/s | 90 kB 00:00 (45/70): perl-Pod-Simple-3.43-490.fc37.noarch.r 15 MB/s | 225 kB 00:00 (46/70): perl-Pod-Usage-2.03-3.fc37.noarch.rpm 4.3 MB/s | 40 kB 00:00 (47/70): perl-SelectSaver-1.02-491.fc37.noarch. 3.6 MB/s | 16 kB 00:00 (48/70): perl-Scalar-List-Utils-1.63-489.fc38.a 7.9 MB/s | 71 kB 00:00 (49/70): perl-Socket-2.035-2.fc37.aarch64.rpm 11 MB/s | 55 kB 00:00 (50/70): perl-Symbol-1.09-491.fc37.noarch.rpm 5.9 MB/s | 19 kB 00:00 (51/70): perl-Storable-3.26-489.fc37.aarch64.rp 8.3 MB/s | 95 kB 00:00 (52/70): perl-Term-Cap-1.17-489.fc37.noarch.rpm 4.9 MB/s | 22 kB 00:00 (53/70): perl-Term-ANSIColor-5.01-490.fc37.noar 4.3 MB/s | 48 kB 00:00 (54/70): perl-Text-ParseWords-3.31-489.fc37.noa 2.2 MB/s | 16 kB 00:00 (55/70): perl-Text-Tabs+Wrap-2021.0814-489.fc37 3.3 MB/s | 22 kB 00:00 (56/70): perl-Time-Local-1.300-489.fc37.noarch. 3.9 MB/s | 33 kB 00:00 (57/70): perl-constant-1.33-490.fc37.noarch.rpm 2.3 MB/s | 23 kB 00:00 (58/70): perl-if-0.61.000-491.fc37.noarch.rpm 3.6 MB/s | 18 kB 00:00 (59/70): perl-interpreter-5.36.0-491.fc37.aarch 8.0 MB/s | 76 kB 00:00 (60/70): perl-lib-0.65-491.fc37.aarch64.rpm 2.6 MB/s | 19 kB 00:00 (61/70): perl-mro-1.26-491.fc37.aarch64.rpm 5.9 MB/s | 33 kB 00:00 (62/70): perl-overload-1.35-491.fc37.noarch.rpm 7.4 MB/s | 50 kB 00:00 (63/70): perl-overloading-0.02-491.fc37.noarch. 5.0 MB/s | 17 kB 00:00 (64/70): perl-parent-0.238-489.fc37.noarch.rpm 1.3 MB/s | 14 kB 00:00 (65/70): perl-podlators-4.14-489.fc37.noarch.rp 19 MB/s | 116 kB 00:00 (66/70): perl-subs-1.04-491.fc37.noarch.rpm 3.9 MB/s | 16 kB 00:00 (67/70): perl-vars-1.05-491.fc37.noarch.rpm 5.6 MB/s | 17 kB 00:00 (68/70): zlib-devel-1.2.12-4.fc37.aarch64.rpm 9.0 MB/s | 44 kB 00:00 (69/70): gcc-12.1.1-4.fc38.aarch64.rpm 34 MB/s | 29 MB 00:00 (70/70): perl-libs-5.36.0-491.fc37.aarch64.rpm 16 MB/s | 2.2 MB 00:00 -------------------------------------------------------------------------------- Total 56 MB/s | 58 MB 00:01 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Preparing : 1/1 Installing : libmpc-1.2.1-5.fc37.aarch64 1/70 Installing : htslib-1.15.1-1.fc38.aarch64 2/70 Installing : cpp-12.1.1-4.fc38.aarch64 3/70 Installing : ncurses-c++-libs-6.3-3.20220501.fc37.aarch64 4/70 Installing : ncurses-6.3-3.20220501.fc37.aarch64 5/70 Installing : libubsan-12.1.1-4.fc38.aarch64 6/70 Installing : libtool-ltdl-2.4.7-2.fc37.aarch64 7/70 Installing : libatomic-12.1.1-4.fc38.aarch64 8/70 Installing : libasan-12.1.1-4.fc38.aarch64 9/70 Installing : kernel-headers-5.19.0-1.fc37.aarch64 10/70 Installing : libxcrypt-devel-4.4.28-3.fc38.aarch64 11/70 Installing : glibc-devel-2.36-1.fc37.aarch64 12/70 Running scriptlet: groff-base-1.22.4-10.fc37.aarch64 13/70 Installing : groff-base-1.22.4-10.fc37.aarch64 13/70 Running scriptlet: groff-base-1.22.4-10.fc37.aarch64 13/70 Installing : perl-Text-Tabs+Wrap-2021.0814-489.fc37.noarch 14/70 Installing : perl-if-0.61.000-491.fc37.noarch 15/70 Installing : perl-Time-Local-2:1.300-489.fc37.noarch 16/70 Installing : perl-File-Path-2.18-489.fc37.noarch 17/70 Installing : perl-Pod-Escapes-1:1.07-489.fc37.noarch 18/70 Installing : perl-Class-Struct-0.66-491.fc37.noarch 19/70 Installing : perl-POSIX-2.03-491.fc37.aarch64 20/70 Installing : perl-Term-ANSIColor-5.01-490.fc37.noarch 21/70 Installing : perl-IPC-Open3-1.22-491.fc37.noarch 22/70 Installing : perl-HTTP-Tiny-0.082-1.fc37.noarch 23/70 Installing : perl-subs-1.04-491.fc37.noarch 24/70 Installing : perl-File-Temp-1:0.231.100-489.fc37.noarch 25/70 Installing : perl-Term-Cap-1.17-489.fc37.noarch 26/70 Installing : perl-Pod-Simple-1:3.43-490.fc37.noarch 27/70 Installing : perl-Socket-4:2.035-2.fc37.aarch64 28/70 Installing : perl-SelectSaver-1.02-491.fc37.noarch 29/70 Installing : perl-Symbol-1.09-491.fc37.noarch 30/70 Installing : perl-File-stat-1.12-491.fc37.noarch 31/70 Installing : perl-podlators-1:4.14-489.fc37.noarch 32/70 Installing : perl-Pod-Perldoc-3.28.01-490.fc37.noarch 33/70 Installing : perl-Fcntl-1.15-491.fc37.aarch64 34/70 Installing : perl-Text-ParseWords-3.31-489.fc37.noarch 35/70 Installing : perl-mro-1.26-491.fc37.aarch64 36/70 Installing : perl-IO-1.50-491.fc37.aarch64 37/70 Installing : perl-overloading-0.02-491.fc37.noarch 38/70 Installing : perl-Pod-Usage-4:2.03-3.fc37.noarch 39/70 Installing : perl-Errno-1.36-491.fc37.aarch64 40/70 Installing : perl-File-Basename-2.85-491.fc37.noarch 41/70 Installing : perl-Getopt-Std-1.13-491.fc37.noarch 42/70 Installing : perl-MIME-Base64-3.16-489.fc37.aarch64 43/70 Installing : perl-Scalar-List-Utils-5:1.63-489.fc38.aarch64 44/70 Installing : perl-constant-1.33-490.fc37.noarch 45/70 Installing : perl-Storable-1:3.26-489.fc37.aarch64 46/70 Installing : perl-overload-1.35-491.fc37.noarch 47/70 Installing : perl-parent-1:0.238-489.fc37.noarch 48/70 Installing : perl-vars-1.05-491.fc37.noarch 49/70 Installing : perl-Getopt-Long-1:2.52-489.fc37.noarch 50/70 Installing : perl-Carp-1.52-489.fc37.noarch 51/70 Installing : perl-Exporter-5.77-489.fc37.noarch 52/70 Installing : perl-PathTools-3.84-489.fc37.aarch64 53/70 Installing : perl-DynaLoader-1.52-491.fc37.aarch64 54/70 Installing : perl-Encode-4:3.19-491.fc37.aarch64 55/70 Installing : perl-libs-4:5.36.0-491.fc37.aarch64 56/70 Installing : perl-interpreter-4:5.36.0-491.fc37.aarch64 57/70 Installing : gc-8.0.6-4.fc37.aarch64 58/70 Installing : guile22-2.2.7-6.fc37.aarch64 59/70 Installing : make-1:4.3-11.fc37.aarch64 60/70 Installing : gcc-12.1.1-4.fc38.aarch64 61/70 Running scriptlet: gcc-12.1.1-4.fc38.aarch64 61/70 Installing : annobin-docs-10.81-1.fc38.noarch 62/70 Installing : annobin-plugin-gcc-10.81-1.fc38.aarch64 63/70 Running scriptlet: annobin-plugin-gcc-10.81-1.fc38.aarch64 63/70 Installing : gcc-plugin-annobin-12.1.1-4.fc38.aarch64 64/70 Installing : perl-FindBin-1.53-491.fc37.noarch 65/70 Installing : perl-lib-0.65-491.fc37.aarch64 66/70 Installing : ncurses-devel-6.3-3.20220501.fc37.aarch64 67/70 Installing : htslib-devel-1.15.1-1.fc38.aarch64 68/70 Installing : htslib-tools-1.15.1-1.fc38.aarch64 69/70 Installing : zlib-devel-1.2.12-4.fc37.aarch64 70/70 Running scriptlet: zlib-devel-1.2.12-4.fc37.aarch64 70/70 Verifying : htslib-1.15.1-1.fc38.aarch64 1/70 Verifying : htslib-devel-1.15.1-1.fc38.aarch64 2/70 Verifying : htslib-tools-1.15.1-1.fc38.aarch64 3/70 Verifying : annobin-docs-10.81-1.fc38.noarch 4/70 Verifying : annobin-plugin-gcc-10.81-1.fc38.aarch64 5/70 Verifying : cpp-12.1.1-4.fc38.aarch64 6/70 Verifying : gc-8.0.6-4.fc37.aarch64 7/70 Verifying : gcc-12.1.1-4.fc38.aarch64 8/70 Verifying : gcc-plugin-annobin-12.1.1-4.fc38.aarch64 9/70 Verifying : glibc-devel-2.36-1.fc37.aarch64 10/70 Verifying : groff-base-1.22.4-10.fc37.aarch64 11/70 Verifying : guile22-2.2.7-6.fc37.aarch64 12/70 Verifying : kernel-headers-5.19.0-1.fc37.aarch64 13/70 Verifying : libasan-12.1.1-4.fc38.aarch64 14/70 Verifying : libatomic-12.1.1-4.fc38.aarch64 15/70 Verifying : libmpc-1.2.1-5.fc37.aarch64 16/70 Verifying : libtool-ltdl-2.4.7-2.fc37.aarch64 17/70 Verifying : libubsan-12.1.1-4.fc38.aarch64 18/70 Verifying : libxcrypt-devel-4.4.28-3.fc38.aarch64 19/70 Verifying : make-1:4.3-11.fc37.aarch64 20/70 Verifying : ncurses-6.3-3.20220501.fc37.aarch64 21/70 Verifying : ncurses-c++-libs-6.3-3.20220501.fc37.aarch64 22/70 Verifying : ncurses-devel-6.3-3.20220501.fc37.aarch64 23/70 Verifying : perl-Carp-1.52-489.fc37.noarch 24/70 Verifying : perl-Class-Struct-0.66-491.fc37.noarch 25/70 Verifying : perl-DynaLoader-1.52-491.fc37.aarch64 26/70 Verifying : perl-Encode-4:3.19-491.fc37.aarch64 27/70 Verifying : perl-Errno-1.36-491.fc37.aarch64 28/70 Verifying : perl-Exporter-5.77-489.fc37.noarch 29/70 Verifying : perl-Fcntl-1.15-491.fc37.aarch64 30/70 Verifying : perl-File-Basename-2.85-491.fc37.noarch 31/70 Verifying : perl-File-Path-2.18-489.fc37.noarch 32/70 Verifying : perl-File-Temp-1:0.231.100-489.fc37.noarch 33/70 Verifying : perl-File-stat-1.12-491.fc37.noarch 34/70 Verifying : perl-FindBin-1.53-491.fc37.noarch 35/70 Verifying : perl-Getopt-Long-1:2.52-489.fc37.noarch 36/70 Verifying : perl-Getopt-Std-1.13-491.fc37.noarch 37/70 Verifying : perl-HTTP-Tiny-0.082-1.fc37.noarch 38/70 Verifying : perl-IO-1.50-491.fc37.aarch64 39/70 Verifying : perl-IPC-Open3-1.22-491.fc37.noarch 40/70 Verifying : perl-MIME-Base64-3.16-489.fc37.aarch64 41/70 Verifying : perl-POSIX-2.03-491.fc37.aarch64 42/70 Verifying : perl-PathTools-3.84-489.fc37.aarch64 43/70 Verifying : perl-Pod-Escapes-1:1.07-489.fc37.noarch 44/70 Verifying : perl-Pod-Perldoc-3.28.01-490.fc37.noarch 45/70 Verifying : perl-Pod-Simple-1:3.43-490.fc37.noarch 46/70 Verifying : perl-Pod-Usage-4:2.03-3.fc37.noarch 47/70 Verifying : perl-Scalar-List-Utils-5:1.63-489.fc38.aarch64 48/70 Verifying : perl-SelectSaver-1.02-491.fc37.noarch 49/70 Verifying : perl-Socket-4:2.035-2.fc37.aarch64 50/70 Verifying : perl-Storable-1:3.26-489.fc37.aarch64 51/70 Verifying : perl-Symbol-1.09-491.fc37.noarch 52/70 Verifying : perl-Term-ANSIColor-5.01-490.fc37.noarch 53/70 Verifying : perl-Term-Cap-1.17-489.fc37.noarch 54/70 Verifying : perl-Text-ParseWords-3.31-489.fc37.noarch 55/70 Verifying : perl-Text-Tabs+Wrap-2021.0814-489.fc37.noarch 56/70 Verifying : perl-Time-Local-2:1.300-489.fc37.noarch 57/70 Verifying : perl-constant-1.33-490.fc37.noarch 58/70 Verifying : perl-if-0.61.000-491.fc37.noarch 59/70 Verifying : perl-interpreter-4:5.36.0-491.fc37.aarch64 60/70 Verifying : perl-lib-0.65-491.fc37.aarch64 61/70 Verifying : perl-libs-4:5.36.0-491.fc37.aarch64 62/70 Verifying : perl-mro-1.26-491.fc37.aarch64 63/70 Verifying : perl-overload-1.35-491.fc37.noarch 64/70 Verifying : perl-overloading-0.02-491.fc37.noarch 65/70 Verifying : perl-parent-1:0.238-489.fc37.noarch 66/70 Verifying : perl-podlators-1:4.14-489.fc37.noarch 67/70 Verifying : perl-subs-1.04-491.fc37.noarch 68/70 Verifying : perl-vars-1.05-491.fc37.noarch 69/70 Verifying : zlib-devel-1.2.12-4.fc37.aarch64 70/70 Installed products updated. Installed: annobin-docs-10.81-1.fc38.noarch annobin-plugin-gcc-10.81-1.fc38.aarch64 cpp-12.1.1-4.fc38.aarch64 gc-8.0.6-4.fc37.aarch64 gcc-12.1.1-4.fc38.aarch64 gcc-plugin-annobin-12.1.1-4.fc38.aarch64 glibc-devel-2.36-1.fc37.aarch64 groff-base-1.22.4-10.fc37.aarch64 guile22-2.2.7-6.fc37.aarch64 htslib-1.15.1-1.fc38.aarch64 htslib-devel-1.15.1-1.fc38.aarch64 htslib-tools-1.15.1-1.fc38.aarch64 kernel-headers-5.19.0-1.fc37.aarch64 libasan-12.1.1-4.fc38.aarch64 libatomic-12.1.1-4.fc38.aarch64 libmpc-1.2.1-5.fc37.aarch64 libtool-ltdl-2.4.7-2.fc37.aarch64 libubsan-12.1.1-4.fc38.aarch64 libxcrypt-devel-4.4.28-3.fc38.aarch64 make-1:4.3-11.fc37.aarch64 ncurses-6.3-3.20220501.fc37.aarch64 ncurses-c++-libs-6.3-3.20220501.fc37.aarch64 ncurses-devel-6.3-3.20220501.fc37.aarch64 perl-Carp-1.52-489.fc37.noarch perl-Class-Struct-0.66-491.fc37.noarch perl-DynaLoader-1.52-491.fc37.aarch64 perl-Encode-4:3.19-491.fc37.aarch64 perl-Errno-1.36-491.fc37.aarch64 perl-Exporter-5.77-489.fc37.noarch perl-Fcntl-1.15-491.fc37.aarch64 perl-File-Basename-2.85-491.fc37.noarch perl-File-Path-2.18-489.fc37.noarch perl-File-Temp-1:0.231.100-489.fc37.noarch perl-File-stat-1.12-491.fc37.noarch perl-FindBin-1.53-491.fc37.noarch perl-Getopt-Long-1:2.52-489.fc37.noarch perl-Getopt-Std-1.13-491.fc37.noarch perl-HTTP-Tiny-0.082-1.fc37.noarch perl-IO-1.50-491.fc37.aarch64 perl-IPC-Open3-1.22-491.fc37.noarch perl-MIME-Base64-3.16-489.fc37.aarch64 perl-POSIX-2.03-491.fc37.aarch64 perl-PathTools-3.84-489.fc37.aarch64 perl-Pod-Escapes-1:1.07-489.fc37.noarch perl-Pod-Perldoc-3.28.01-490.fc37.noarch perl-Pod-Simple-1:3.43-490.fc37.noarch perl-Pod-Usage-4:2.03-3.fc37.noarch perl-Scalar-List-Utils-5:1.63-489.fc38.aarch64 perl-SelectSaver-1.02-491.fc37.noarch perl-Socket-4:2.035-2.fc37.aarch64 perl-Storable-1:3.26-489.fc37.aarch64 perl-Symbol-1.09-491.fc37.noarch perl-Term-ANSIColor-5.01-490.fc37.noarch perl-Term-Cap-1.17-489.fc37.noarch perl-Text-ParseWords-3.31-489.fc37.noarch perl-Text-Tabs+Wrap-2021.0814-489.fc37.noarch perl-Time-Local-2:1.300-489.fc37.noarch perl-constant-1.33-490.fc37.noarch perl-if-0.61.000-491.fc37.noarch perl-interpreter-4:5.36.0-491.fc37.aarch64 perl-lib-0.65-491.fc37.aarch64 perl-libs-4:5.36.0-491.fc37.aarch64 perl-mro-1.26-491.fc37.aarch64 perl-overload-1.35-491.fc37.noarch perl-overloading-0.02-491.fc37.noarch perl-parent-1:0.238-489.fc37.noarch perl-podlators-1:4.14-489.fc37.noarch perl-subs-1.04-491.fc37.noarch perl-vars-1.05-491.fc37.noarch zlib-devel-1.2.12-4.fc37.aarch64 Complete! Finish: build setup for samtools-1.15.1-1.fc38.src.rpm Start: rpmbuild samtools-1.15.1-1.fc38.src.rpm Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1660521600 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.UAlQb4 + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf samtools-1.15.1 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/samtools-1.15.1.tar.bz2 + STATUS=0 + '[' 0 -ne 0 ']' + cd samtools-1.15.1 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + rm -f INSTALL + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.II7LrI + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' -f /usr/lib/rpm/generate-rpm-note.sh ']' + /usr/lib/rpm/generate-rpm-note.sh samtools 1.15.1-1.fc38 aarch64 + cd samtools-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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld' + 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' ./htslib-1.15.1/configure + diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure + mv ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure + /usr/bin/sed -r --in-place=.backup 's/^char $\*f$ ;/__attribute__ ((used)) char (*f) ();/g' ./htslib-1.15.1/configure + diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure + mv ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure + /usr/bin/sed -r --in-place=.backup 's/^char \$2 ;/__attribute__ ((used)) char \$2 ();/g' ./htslib-1.15.1/configure + diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure --- ./htslib-1.15.1/configure.backup 2022-04-07 15:42:52.000000000 +0000 +++ ./htslib-1.15.1/configure 2022-08-15 14:28:15.975541286 +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' ./htslib-1.15.1/configure + diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure + mv ./htslib-1.15.1/configure.backup ./htslib-1.15.1/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'\''"#' ./htslib-1.15.1/configure + diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure + mv ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure + 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 + mv ./configure.backup ./configure + /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=aarch64-redhat-linux-gnu --host=aarch64-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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld' --prefix=/usr --with-htslib=system checking for gawk... gawk checking for aarch64-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 grep that handles long lines and -e... /usr/bin/grep checking for C compiler warning flags... -Wall checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for htslib/sam.h... yes checking for hts_version in -lhts... yes checking for NcursesW wide-character library... yes checking for working ncursesw/curses.h... yes checking for library containing cbreak... none required checking for zlib.h... yes checking for inflate in -lz... yes checking for library containing regcomp... none required configure: creating ./config.status config.status: creating config.mk config.status: creating config.h + /usr/bin/make -O -j4 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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_aux.o bam_aux.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_index.o bam_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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam.o bam.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_cat.o bam_cat.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_fastq.o bam_fastq.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_plbuf.o bam_plbuf.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_md.o bam_md.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_plcmd.o bam_plcmd.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_reheader.o bam_reheader.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o sam_view.o sam_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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_rmdup.o bam_rmdup.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_rmdupse.o bam_rmdupse.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_color.o bam_color.c echo '#define SAMTOOLS_VERSION "1.15.1"' > version.h echo '#define SAMTOOLS_CC "gcc"' >> version.h echo '#define SAMTOOLS_CPPFLAGS ""' >> version.h echo '#define SAMTOOLS_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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection"' >> version.h echo '#define SAMTOOLS_LDFLAGS "-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld"' >> version.h echo '#define SAMTOOLS_HTSDIR ""' >> version.h echo '#define SAMTOOLS_LIBS ""' >> version.h echo '#define SAMTOOLS_CURSES_LIB "-lncursesw"' >> version.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_stat.o bam_stat.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam2bcf.o bam2bcf.c bam2bcf.c: In function 'bcf_call_glfgen': bam2bcf.c:81:33: warning: argument 2 range [18446744071562067968, 18446744073709551614] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 81 | bca->bases = (uint16_t*)realloc(bca->bases, 2 * bca->max_bases); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/htslib/kstring.h:30, from /usr/include/htslib/hts.h:37, from bam2bcf.c:30: /usr/include/stdlib.h:564:14: note: in a call to allocation function 'realloc' declared here 564 | extern void *realloc (void *__ptr, size_t __size) | ^~~~~~~ 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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_mate.o bam_mate.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o cut_target.o cut_target.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o sample.o sample.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o coverage.o coverage.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam2depth.o bam2depth.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o padding.o padding.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o phase.o phase.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bedcov.o bedcov.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o dict.o dict.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o stats_isize.o stats_isize.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bamshuf.o bamshuf.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_flags.o bam_flags.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_sort.o bam_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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_split.o bam_split.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_tview.o bam_tview.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_tview_curses.o bam_tview_curses.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_tview_html.o bam_tview_html.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_lpileup.o bam_lpileup.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_quickcheck.o bam_quickcheck.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o tmp_file.o tmp_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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_addrprg.o bam_addrprg.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o stats.o 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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_import.o bam_import.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_ampliconclip.o bam_ampliconclip.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_samples.o bam_samples.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o consensus_pileup.o consensus_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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_markdup.o bam_markdup.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o sam_opts.o sam_opts.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o amplicon_stats.o amplicon_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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o sam_utils.o sam_utils.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bam_consensus.o bam_consensus.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -DMAQ_LONGREADS -I. -I./lz4 -c -o misc/maq2sam-long.o misc/maq2sam.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o misc/maq2sam-short.o misc/maq2sam.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bedidx.o bedidx.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o misc/md5fa.o misc/md5fa.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o misc/md5sum-lite.o misc/md5sum-lite.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o misc/ace2sam.o misc/ace2sam.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/test.o test/test.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o misc/wgsim.o misc/wgsim.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o lz4/lz4.o lz4/lz4.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/split/test_count_rg.o test/split/test_count_rg.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/split/test_expand_format_string.o test/split/test_expand_format_string.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/split/test_filter_header_rg.o test/split/test_filter_header_rg.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/split/test_parse_args.o test/split/test_parse_args.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/vcf-miniview.o test/vcf-miniview.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o bamtk.o bamtk.c ar -rcs libst.a sam_opts.o sam_utils.o bedidx.o 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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/merge/test_rtrans_build.o test/merge/test_rtrans_build.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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/merge/test_bam_translate.o test/merge/test_bam_translate.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 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o misc/maq2sam-long misc/maq2sam-long.o -lz 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 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o misc/maq2sam-short misc/maq2sam-short.o -lz gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o misc/md5sum-lite misc/md5sum-lite.o -lhts -lz gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o misc/md5fa misc/md5fa.o -lhts -lz 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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I. -I./lz4 -c -o test/merge/test_trans_tbl_init.o test/merge/test_trans_tbl_init.c gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o misc/ace2sam misc/ace2sam.o -lhts -lz gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o test/merge/test_rtrans_build test/merge/test_rtrans_build.o test/test.o libst.a -lhts -lz -lpthread gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o test/merge/test_bam_translate test/merge/test_bam_translate.o test/test.o libst.a -lhts -lz -lpthread gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o test/split/test_count_rg test/split/test_count_rg.o test/test.o libst.a -lhts -lz -lpthread gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o misc/wgsim misc/wgsim.o -lm -lhts -lz gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o test/split/test_expand_format_string test/split/test_expand_format_string.o test/test.o libst.a -lhts -lz -lpthread gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o test/split/test_filter_header_rg test/split/test_filter_header_rg.o test/test.o libst.a -lhts -lz -lpthread gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o test/split/test_parse_args test/split/test_parse_args.o test/test.o libst.a -lhts -lz -lpthread gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o test/vcf-miniview test/vcf-miniview.o -lhts -lz -lpthread gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o test/merge/test_trans_tbl_init test/merge/test_trans_tbl_init.o test/test.o libst.a -lhts -lz -lpthread gcc -L./lz4 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld -o samtools bam.o bam_aux.o bam_index.o bam_plcmd.o sam_view.o bam_fastq.o bam_cat.o bam_md.o bam_plbuf.o bam_reheader.o bam_sort.o bam_rmdup.o bam_rmdupse.o bam_mate.o bam_stat.o bam_color.o bamtk.o bam2bcf.o sample.o cut_target.o phase.o bam2depth.o coverage.o padding.o bedcov.o bamshuf.o faidx.o dict.o stats.o stats_isize.o bam_flags.o bam_split.o bam_tview.o bam_tview_curses.o bam_tview_html.o bam_lpileup.o bam_quickcheck.o bam_addrprg.o bam_markdup.o tmp_file.o bam_ampliconclip.o amplicon_stats.o bam_import.o bam_samples.o bam_consensus.o consensus_pileup.o ./lz4/lz4.o libst.a -lhts -lncursesw -lm -lz -lpthread In function 'bcf_call_glfgen', inlined from 'tv_pl_func' at bam_tview.c:196:9: bam2bcf.c:81:33: warning: argument 2 range [18446744071562067968, 18446744073709551614] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 81 | bca->bases = (uint16_t*)realloc(bca->bases, 2 * bca->max_bases); | ^ /usr/include/stdlib.h: In function 'tv_pl_func': /usr/include/stdlib.h:564:14: note: in a call to allocation function 'realloc' declared here 564 | extern void *realloc (void *__ptr, size_t __size) | ^ + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.3JgUXQ + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64 ++ dirname /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64 + 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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd samtools-1.15.1 + /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64 'INSTALL=/usr/bin/install -p' mkdir -p -m 755 /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/man/man1 /usr/bin/install -p samtools /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin /usr/bin/install -p misc/ace2sam misc/maq2sam-long misc/maq2sam-short misc/md5fa misc/md5sum-lite misc/wgsim /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin /usr/bin/install -p misc/blast2sam.pl misc/bowtie2sam.pl misc/export2sam.pl misc/fasta-sanitize.pl misc/interpolate_sam.pl misc/novo2sam.pl misc/plot-ampliconstats misc/plot-bamstats misc/psl2sam.pl misc/sam2vcf.pl misc/samtools.pl misc/seq_cache_populate.pl misc/soap2sam.pl misc/wgsim_eval.pl misc/zoom2sam.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin /usr/bin/install -p -m 644 doc/samtools*.1 misc/wgsim.1 /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/man/man1 ++ grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/ace2sam /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/blast2sam.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/bowtie2sam.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/export2sam.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/fasta-sanitize.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/interpolate_sam.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/maq2sam-long /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/maq2sam-short /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/md5fa /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/md5sum-lite /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/novo2sam.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/plot-ampliconstats /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/plot-bamstats /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/psl2sam.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/sam2vcf.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/samtools /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/samtools.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/seq_cache_populate.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/soap2sam.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/wgsim /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/wgsim_eval.pl /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/zoom2sam.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/blast2sam.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/bowtie2sam.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/export2sam.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/fasta-sanitize.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/interpolate_sam.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/novo2sam.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/plot-ampliconstats + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/plot-bamstats + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/psl2sam.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/sam2vcf.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/samtools.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/seq_cache_populate.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/soap2sam.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/wgsim_eval.pl + for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/*) + sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/zoom2sam.pl + /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 1.15.1-1.fc38 --unique-debug-suffix -1.15.1-1.fc38.aarch64 --unique-debug-src-base samtools-1.15.1-1.fc38.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/samtools-1.15.1 extracting debug info from /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/maq2sam-short extracting debug info from /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/ace2sam extracting debug info from /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/maq2sam-long extracting debug info from /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/md5fa extracting debug info from /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/md5sum-lite extracting debug info from /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/samtools extracting debug info from /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/bin/wgsim original debug info size: 2084kB, size after compression: 1884kB /usr/bin/sepdebugcrcfix: Updated 7 CRC32s, 0 CRC32s did match. 2442 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.gQJ5je + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-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 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/samtools-1.15.1/.package_note-samtools-1.15.1-1.fc38.aarch64.ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' -f /usr/lib/rpm/generate-rpm-note.sh ']' + /usr/lib/rpm/generate-rpm-note.sh samtools 1.15.1-1.fc38 aarch64 + cd samtools-1.15.1 + ldd samtools + grep -E '/lib(64)?/libhts\.so\.' libhts.so.3 => /lib64/libhts.so.3 (0x0000ffffb76c0000) + make test test/split/test_count_rg test/split/test_expand_format_string test/split/test_filter_header_rg test/split/test_parse_args REF_PATH=: test/test.pl --exec bgzip= ${TEST_OPTS:-} bgzip -c -b 65272 -s 5 /tmp/V_3nyECr8t/bgzip.dat.gz .. ok bgzip -c -b 979200 -s 6 /tmp/V_3nyECr8t/bgzip.dat.gz .. ok bgzip -c -b 652804 -s 6 /tmp/V_3nyECr8t/bgzip.dat.gz .. ok /builddir/build/BUILD/samtools-1.15.1/samtools faidx /tmp/V_3nyECr8t/faidx.fa 3:11-13 | grep -v '^>' .. ok /builddir/build/BUILD/samtools-1.15.1/samtools faidx /tmp/V_3nyECr8t/faidx.fa.gz 3:11-13 | grep -v '^>' .. ok /builddir/build/BUILD/samtools-1.15.1/samtools faidx /tmp/V_3nyECr8t/faidx.fa 2:998-1003 | grep -v '^>' .. ok /builddir/build/BUILD/samtools-1.15.1/samtools faidx /tmp/V_3nyECr8t/faidx.fa.gz 2:998-1003 | grep -v '^>' .. ok /builddir/build/BUILD/samtools-1.15.1/samtools faidx /tmp/V_3nyECr8t/faidx.fa 1:100-104 | grep -v '^>' .. ok /builddir/build/BUILD/samtools-1.15.1/samtools faidx /tmp/V_3nyECr8t/faidx.fa.gz 1:100-104 | grep -v '^>' .. ok /builddir/build/BUILD/samtools-1.15.1/samtools faidx /tmp/V_3nyECr8t/faidx.fa 1:99998-100007 | grep -v '^>' .. ok /builddir/build/BUILD/samtools-1.15.1/samtools faidx /tmp/V_3nyECr8t/faidx.fa.gz 1:99998-100007 | grep -v '^>' .. ok /builddir/build/BUILD/samtools-1.15.1/samtools fqidx /tmp/V_3nyECr8t/fqidx.fq 3:11-13 .. ok .. ok /builddir/build/BUILD/samtools-1.15.1/samtools fqidx /tmp/V_3nyECr8t/fqidx.fq.gz 3:11-13 .. ok .. ok /builddir/build/BUILD/samtools-1.15.1/samtools fqidx /tmp/V_3nyECr8t/fqidx.fq 2:998-1003 .. ok .. ok /builddir/build/BUILD/samtools-1.15.1/samtools fqidx /tmp/V_3nyECr8t/fqidx.fq.gz 2:998-1003 .. ok .. ok /builddir/build/BUILD/samtools-1.15.1/samtools fqidx /tmp/V_3nyECr8t/fqidx.fq 1:100-104 .. ok .. ok /builddir/build/BUILD/samtools-1.15.1/samtools fqidx /tmp/V_3nyECr8t/fqidx.fq.gz 1:100-104 .. ok .. ok /builddir/build/BUILD/samtools-1.15.1/samtools fqidx /tmp/V_3nyECr8t/fqidx.fq 1:99998-100007 .. ok .. ok /builddir/build/BUILD/samtools-1.15.1/samtools fqidx /tmp/V_3nyECr8t/fqidx.fq.gz 1:99998-100007 .. ok .. ok test_dict: /builddir/build/BUILD/samtools-1.15.1/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz /builddir/build/BUILD/samtools-1.15.1/test/dat/dict.fa .. ok test_dict: /builddir/build/BUILD/samtools-1.15.1/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz /tmp/V_3nyECr8t/dict.fa.gz .. ok test_dict: cat /builddir/build/BUILD/samtools-1.15.1/test/dat/dict.fa | /builddir/build/BUILD/samtools-1.15.1/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz .. ok test_dict: /builddir/build/BUILD/samtools-1.15.1/samtools dict -AH < /builddir/build/BUILD/samtools-1.15.1/test/dat/dict.alias.fa .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools view /tmp/V_3nyECr8t/large_chrom.bam ref2 .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools view /tmp/V_3nyECr8t/large_chrom.bam ref2:1-541556283 .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools index /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam && cat /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam.bai .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools view -X /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.bam /tmp/V_3nyECr8t/test_input_1_b.bam.bai ref2 .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools merge -O sam - -X -cp -R ref2 /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.bam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam.bai /tmp/V_3nyECr8t/test_input_1_b.bam.bai .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools index -c /builddir/build/BUILD/samtools-1.15.1/test/dat/auto_indexed.tmp.bam /tmp/V_3nyECr8t/auto_indexed.csi && cat /tmp/V_3nyECr8t/auto_indexed.csi .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools index /builddir/build/BUILD/samtools-1.15.1/test/dat/auto_indexed.tmp.cram /tmp/V_3nyECr8t/auto_indexed.crai && cat /tmp/V_3nyECr8t/auto_indexed.crai .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools index -c /builddir/build/BUILD/samtools-1.15.1/test/dat/auto_indexed.tmp.sam /tmp/V_3nyECr8t/auto_indexed.csi && cat /tmp/V_3nyECr8t/auto_indexed.csi .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools view -@ 2 /tmp/V_3nyECr8t/large_chrom.bam ref2 .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools view -@ 2 /tmp/V_3nyECr8t/large_chrom.bam ref2:1-541556283 .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools index -@ 2 /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam && cat /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam.bai .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools view -@ 2 -X /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.bam /tmp/V_3nyECr8t/test_input_1_b.bam.bai ref2 .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -O sam - -X -cp -R ref2 /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.bam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam.bai /tmp/V_3nyECr8t/test_input_1_b.bam.bai .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools index -@ 2 -c /builddir/build/BUILD/samtools-1.15.1/test/dat/auto_indexed.tmp.bam /tmp/V_3nyECr8t/auto_indexed.csi && cat /tmp/V_3nyECr8t/auto_indexed.csi .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools index -@ 2 /builddir/build/BUILD/samtools-1.15.1/test/dat/auto_indexed.tmp.cram /tmp/V_3nyECr8t/auto_indexed.crai && cat /tmp/V_3nyECr8t/auto_indexed.crai .. ok test_index: /builddir/build/BUILD/samtools-1.15.1/samtools index -@ 2 -c /builddir/build/BUILD/samtools-1.15.1/test/dat/auto_indexed.tmp.sam /tmp/V_3nyECr8t/auto_indexed.csi && cat /tmp/V_3nyECr8t/auto_indexed.csi .. ok test_mpileup: /builddir/build/BUILD/samtools-1.15.1/samtools mpileup -b /tmp/V_3nyECr8t/mpileup.bam.list -f /tmp/V_3nyECr8t/mpileup.ref.fa.gz -r17:100-150 .. ok test_mpileup: /builddir/build/BUILD/samtools-1.15.1/samtools mpileup -b /tmp/V_3nyECr8t/mpileup.cram.list -f /tmp/V_3nyECr8t/mpileup.ref.fa.gz -r17:100-150 .. ok test_mpileup: /builddir/build/BUILD/samtools-1.15.1/samtools mpileup -b /tmp/V_3nyECr8t/mpileup.bam.urllist -f /tmp/V_3nyECr8t/mpileup.ref.fa.gz -r17:100-150 .. ok test_mpileup: /builddir/build/BUILD/samtools-1.15.1/samtools mpileup -b /tmp/V_3nyECr8t/mpileup.cram.urllist -f /tmp/V_3nyECr8t/mpileup.ref.fa.gz -r17:100-150 .. ok test_mpileup: /builddir/build/BUILD/samtools-1.15.1/samtools mpileup -B --ff 0x14 -f /tmp/V_3nyECr8t/mpileup.ref.fa.gz -r17:1050-1060 /tmp/V_3nyECr8t/mpileup.1.bam | grep -v mpileup .. ok test_mpileup: /builddir/build/BUILD/samtools-1.15.1/samtools mpileup -B --ff 0x14 -f /tmp/V_3nyECr8t/mpileup.ref.fa.gz -r17:1050-1060 /tmp/V_3nyECr8t/mpileup.1.cram | grep -v mpileup .. ok test_mpileup: /builddir/build/BUILD/samtools-1.15.1/samtools mpileup /builddir/build/BUILD/samtools-1.15.1/test/mpileup/overlap.bam | grep 128814202 test/test.pl: no IO::Pty module or can't open pty; skipping usage tests .. ok test_usage: samtools test_view: Generating test data file .................. done 1: SAM -> BAM -> SAM .. ok 2: SAM -> uncompressed BAM .. ok 3: uncompressed BAM -> SAM and compare .. ok 4: SAM -> fast compressed BAM .. ok 5: fast compressed BAM -> SAM and compare .. ok 6: SAM -> CRAM -> SAM (UR header tags) .. ok 7: SAM -> CRAM -> SAM (M5 header tags) .. ok 8: BAM -> CRAM with UR -> SAM .. ok 9: SAM -> BAM (M5 header tags) .. ok 10: SAM -> BAM -> CRAM -> SAM (M5 header tags) .. ok 11: CRAM -> BAM with UR .. ok 12: CRAM -> BAM with M5 .. ok 13: SAM -> SAM via stdout .. ok 14: SAM -> BAM via stdout .. ok 15: SAM -> CRAM via stdout .. ok 16: SAM from stdin -> SAM .. ok 17: BAM from stdin -> SAM .. ok 18: CRAM from stdin -> SAM .. ok 19: samtools view -H (SAM input) .. ok 20: samtools view -H (BAM input) .. ok 21: samtools view -H (CRAM input) .. ok 22: No headers (SAM input) .. ok 23: No headers (BAM input) .. ok 24: No headers (CRAM input) .. ok 25: Filter -f 128 (SAM input) .. ok 26: Count -f 128 (SAM input) .. ok 27: Filter -f 128 (BAM input) .. ok 28: Count -f 128 (BAM input) .. ok 29: Filter -f 128 (CRAM input) .. ok 30: Count -f 128 (CRAM input) .. ok 31: Filter -F 128 (SAM input) .. ok 32: Count -F 128 (SAM input) .. ok 33: Filter -F 128 (BAM input) .. ok 34: Count -F 128 (BAM input) .. ok 35: Filter -F 128 (CRAM input) .. ok 36: Count -F 128 (CRAM input) .. ok 37: Filter -F 128 -f 2 (SAM input) .. ok 38: Count -F 128 -f 2 (SAM input) .. ok 39: Filter -F 128 -f 2 (BAM input) .. ok 40: Count -F 128 -f 2 (BAM input) .. ok 41: Filter -F 128 -f 2 (CRAM input) .. ok 42: Count -F 128 -f 2 (CRAM input) .. ok 43: Filter -r grp2 (SAM input) .. ok 44: Count -r grp2 (SAM input) .. ok 45: Filter -r grp2 (BAM input) .. ok 46: Count -r grp2 (BAM input) .. ok 47: Filter -r grp2 (CRAM input) .. ok 48: Count -r grp2 (CRAM input) .. ok 49: Filter -R /tmp/V_3nyECr8t/view.001.fogn (SAM input) .. ok 50: Count -R /tmp/V_3nyECr8t/view.001.fogn (SAM input) .. ok 51: Filter -R /tmp/V_3nyECr8t/view.001.fogn (BAM input) .. ok 52: Count -R /tmp/V_3nyECr8t/view.001.fogn (BAM input) .. ok 53: Filter -R /tmp/V_3nyECr8t/view.001.fogn (CRAM input) .. ok 54: Count -R /tmp/V_3nyECr8t/view.001.fogn (CRAM input) .. ok 55: Filter -R /tmp/V_3nyECr8t/view.001.fogn -r grp2 (SAM input).. ok 56: Count -R /tmp/V_3nyECr8t/view.001.fogn -r grp2 (SAM input).. ok 57: Filter -R /tmp/V_3nyECr8t/view.001.fogn -r grp2 (BAM input).. ok 58: Count -R /tmp/V_3nyECr8t/view.001.fogn -r grp2 (BAM input).. ok 59: Filter -R /tmp/V_3nyECr8t/view.001.fogn -r grp2 (CRAM input).. ok 60: Count -R /tmp/V_3nyECr8t/view.001.fogn -r grp2 (CRAM input).. ok 61: Filter -r grp2 -R /tmp/V_3nyECr8t/view.001.fogn (SAM input).. ok 62: Count -r grp2 -R /tmp/V_3nyECr8t/view.001.fogn (SAM input).. ok 63: Filter -r grp2 -R /tmp/V_3nyECr8t/view.001.fogn (BAM input).. ok 64: Count -r grp2 -R /tmp/V_3nyECr8t/view.001.fogn (BAM input).. ok 65: Filter -r grp2 -R /tmp/V_3nyECr8t/view.001.fogn (CRAM input).. ok 66: Count -r grp2 -R /tmp/V_3nyECr8t/view.001.fogn (CRAM input).. ok 67: Filter -N /tmp/V_3nyECr8t/view.001.forn (SAM input) .. ok 68: Count -N /tmp/V_3nyECr8t/view.001.forn (SAM input) .. ok 69: Filter -N /tmp/V_3nyECr8t/view.001.forn (BAM input) .. ok 70: Count -N /tmp/V_3nyECr8t/view.001.forn (BAM input) .. ok 71: Filter -N /tmp/V_3nyECr8t/view.001.forn (CRAM input) .. ok 72: Count -N /tmp/V_3nyECr8t/view.001.forn (CRAM input) .. ok 73: Filter -d BC (SAM input) .. ok 74: Count -d BC (SAM input) .. ok 75: Filter -d BC (BAM input) .. ok 76: Count -d BC (BAM input) .. ok 77: Filter -d BC (CRAM input) .. ok 78: Count -d BC (CRAM input) .. ok 79: Filter -d BC:TGCA (SAM input) .. ok 80: Count -d BC:TGCA (SAM input) .. ok 81: Filter -d BC:TGCA (BAM input) .. ok 82: Count -d BC:TGCA (BAM input) .. ok 83: Filter -d BC:TGCA (CRAM input) .. ok 84: Count -d BC:TGCA (CRAM input) .. ok 85: Filter -D BC:/tmp/V_3nyECr8t/view.001.fobc (SAM input) .. ok 86: Count -D BC:/tmp/V_3nyECr8t/view.001.fobc (SAM input) .. ok 87: Filter -D BC:/tmp/V_3nyECr8t/view.001.fobc (BAM input) .. ok 88: Count -D BC:/tmp/V_3nyECr8t/view.001.fobc (BAM input) .. ok 89: Filter -D BC:/tmp/V_3nyECr8t/view.001.fobc (CRAM input) .. ok 90: Count -D BC:/tmp/V_3nyECr8t/view.001.fobc (CRAM input) .. ok 91: Filter -D BC:/tmp/V_3nyECr8t/view.001.fobc -d BC:TGCA (SAM input).. ok 92: Count -D BC:/tmp/V_3nyECr8t/view.001.fobc -d BC:TGCA (SAM input).. ok 93: Filter -D BC:/tmp/V_3nyECr8t/view.001.fobc -d BC:TGCA (BAM input).. ok 94: Count -D BC:/tmp/V_3nyECr8t/view.001.fobc -d BC:TGCA (BAM input).. ok 95: Filter -D BC:/tmp/V_3nyECr8t/view.001.fobc -d BC:TGCA (CRAM input).. ok 96: Count -D BC:/tmp/V_3nyECr8t/view.001.fobc -d BC:TGCA (CRAM input).. ok 97: Filter -d BC:TGCA -D BC:/tmp/V_3nyECr8t/view.001.fobc (SAM input).. ok 98: Count -d BC:TGCA -D BC:/tmp/V_3nyECr8t/view.001.fobc (SAM input).. ok 99: Filter -d BC:TGCA -D BC:/tmp/V_3nyECr8t/view.001.fobc (BAM input).. ok 100: Count -d BC:TGCA -D BC:/tmp/V_3nyECr8t/view.001.fobc (BAM input).. ok 101: Filter -d BC:TGCA -D BC:/tmp/V_3nyECr8t/view.001.fobc (CRAM input).. ok 102: Count -d BC:TGCA -D BC:/tmp/V_3nyECr8t/view.001.fobc (CRAM input).. ok 103: Filter -D RG:/tmp/V_3nyECr8t/view.001.fogn (SAM input) .. ok 104: Count -D RG:/tmp/V_3nyECr8t/view.001.fogn (SAM input) .. ok 105: Filter -D RG:/tmp/V_3nyECr8t/view.001.fogn (BAM input) .. ok 106: Count -D RG:/tmp/V_3nyECr8t/view.001.fogn (BAM input) .. ok 107: Filter -D RG:/tmp/V_3nyECr8t/view.001.fogn (CRAM input).. ok 108: Count -D RG:/tmp/V_3nyECr8t/view.001.fogn (CRAM input) .. ok 109: Filter -d NE:TGCA (SAM input) .. ok 110: Count -d NE:TGCA (SAM input) .. ok 111: Filter -d NE:TGCA (BAM input) .. ok 112: Count -d NE:TGCA (BAM input) .. ok 113: Filter -d NE:TGCA (CRAM input) .. ok 114: Count -d NE:TGCA (CRAM input) .. ok 115: Filter -d TGCA (SAM input) samtools view: Invalid "tag:value" option: "TGCA" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test115.sam -h -d TGCA /tmp/V_3nyECr8t/view.001.sam --no-PG .. expected failure 116: Count -d TGCA (SAM input) samtools view: Invalid "tag:value" option: "TGCA" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -d TGCA /tmp/V_3nyECr8t/view.001.sam --no-PG .. expected failure 117: Filter -d TGCA (BAM input) samtools view: Invalid "tag:value" option: "TGCA" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test117.sam -h -d TGCA /tmp/V_3nyECr8t/view.test001.bam --no-PG .. expected failure 118: Count -d TGCA (BAM input) samtools view: Invalid "tag:value" option: "TGCA" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -d TGCA /tmp/V_3nyECr8t/view.test001.bam --no-PG .. expected failure 119: Filter -d TGCA (CRAM input) samtools view: Invalid "tag:value" option: "TGCA" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test119.sam -h -d TGCA /tmp/V_3nyECr8t/view.test006.cram --no-PG .. expected failure 120: Count -d TGCA (CRAM input) samtools view: Invalid "tag:value" option: "TGCA" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -d TGCA /tmp/V_3nyECr8t/view.test006.cram --no-PG .. expected failure 121: Filter -D BClong:/tmp/V_3nyECr8t/view.001.fobc (SAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/V_3nyECr8t/view.001.fobc" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test121.sam -h -D BClong:/tmp/V_3nyECr8t/view.001.fobc /tmp/V_3nyECr8t/view.001.sam --no-PG .. expected failure 122: Count -D BClong:/tmp/V_3nyECr8t/view.001.fobc (SAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/V_3nyECr8t/view.001.fobc" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -D BClong:/tmp/V_3nyECr8t/view.001.fobc /tmp/V_3nyECr8t/view.001.sam --no-PG .. expected failure 123: Filter -D BClong:/tmp/V_3nyECr8t/view.001.fobc (BAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/V_3nyECr8t/view.001.fobc" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test123.sam -h -D BClong:/tmp/V_3nyECr8t/view.001.fobc /tmp/V_3nyECr8t/view.test001.bam --no-PG .. expected failure 124: Count -D BClong:/tmp/V_3nyECr8t/view.001.fobc (BAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/V_3nyECr8t/view.001.fobc" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -D BClong:/tmp/V_3nyECr8t/view.001.fobc /tmp/V_3nyECr8t/view.test001.bam --no-PG .. expected failure 125: Filter -D BClong:/tmp/V_3nyECr8t/view.001.fobc (CRAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/V_3nyECr8t/view.001.fobc" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test125.sam -h -D BClong:/tmp/V_3nyECr8t/view.001.fobc /tmp/V_3nyECr8t/view.test006.cram --no-PG .. expected failure 126: Count -D BClong:/tmp/V_3nyECr8t/view.001.fobc (CRAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/V_3nyECr8t/view.001.fobc" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -D BClong:/tmp/V_3nyECr8t/view.001.fobc /tmp/V_3nyECr8t/view.test006.cram --no-PG .. expected failure 127: Filter -d BC:ACGT -d RG:grp2 (SAM input) samtools view: Different tag "BC" was specified before: "RG:grp2" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test127.sam -h -d BC:ACGT -d RG:grp2 /tmp/V_3nyECr8t/view.001.sam --no-PG .. expected failure 128: Count -d BC:ACGT -d RG:grp2 (SAM input) samtools view: Different tag "BC" was specified before: "RG:grp2" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/V_3nyECr8t/view.001.sam --no-PG .. expected failure 129: Filter -d BC:ACGT -d RG:grp2 (BAM input) samtools view: Different tag "BC" was specified before: "RG:grp2" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test129.sam -h -d BC:ACGT -d RG:grp2 /tmp/V_3nyECr8t/view.test001.bam --no-PG .. expected failure 130: Count -d BC:ACGT -d RG:grp2 (BAM input) samtools view: Different tag "BC" was specified before: "RG:grp2" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/V_3nyECr8t/view.test001.bam --no-PG .. expected failure 131: Filter -d BC:ACGT -d RG:grp2 (CRAM input) samtools view: Different tag "BC" was specified before: "RG:grp2" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -o /tmp/V_3nyECr8t/view.test131.sam -h -d BC:ACGT -d RG:grp2 /tmp/V_3nyECr8t/view.test006.cram --no-PG .. expected failure 132: Count -d BC:ACGT -d RG:grp2 (CRAM input) samtools view: Different tag "BC" was specified before: "RG:grp2" Failed command: /builddir/build/BUILD/samtools-1.15.1/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/V_3nyECr8t/view.test006.cram --no-PG .. expected failure 133: Filter -d NM:13 (SAM input) .. ok 134: Count -d NM:13 (SAM input) .. ok 135: Filter -d NM:13 (BAM input) .. ok 136: Count -d NM:13 (BAM input) .. ok 137: Filter -d NM:13 (CRAM input) .. ok 138: Count -d NM:13 (CRAM input) .. ok 139: Filter -d ab:z (SAM input) .. ok 140: Count -d ab:z (SAM input) .. ok 141: Filter -d ab:z (BAM input) .. ok 142: Count -d ab:z (BAM input) .. ok 143: Filter -d ab:z (CRAM input) .. ok 144: Count -d ab:z (CRAM input) .. ok 145: Filter -l Library 2 (SAM input) .. ok 146: Count -l Library 2 (SAM input) .. ok 147: Filter -l Library 2 (BAM input) .. ok 148: Count -l Library 2 (BAM input) .. ok 149: Filter -l Library 2 (CRAM input) .. ok 150: Count -l Library 2 (CRAM input) .. ok 151: Filter -l Library 3 (SAM input) .. ok 152: Count -l Library 3 (SAM input) .. ok 153: Filter -l Library 3 (BAM input) .. ok 154: Count -l Library 3 (BAM input) .. ok 155: Filter -l Library 3 (CRAM input) .. ok 156: Count -l Library 3 (CRAM input) .. ok 157: Filter -q 50 (SAM input) .. ok 158: Count -q 50 (SAM input) .. ok 159: Filter -q 50 (BAM input) .. ok 160: Count -q 50 (BAM input) .. ok 161: Filter -q 50 (CRAM input) .. ok 162: Count -q 50 (CRAM input) .. ok 163: Filter -q 99 (SAM input) .. ok 164: Count -q 99 (SAM input) .. ok 165: Filter -q 99 (BAM input) .. ok 166: Count -q 99 (BAM input) .. ok 167: Filter -q 99 (CRAM input) .. ok 168: Count -q 99 (CRAM input) .. ok 169: Filter -q 100 (SAM input) .. ok 170: Count -q 100 (SAM input) .. ok 171: Filter -q 100 (BAM input) .. ok 172: Count -q 100 (BAM input) .. ok 173: Filter -q 100 (CRAM input) .. ok 174: Count -q 100 (CRAM input) .. ok 175: Filter -x fa (SAM input) .. ok 176: Count -x fa (SAM input) .. ok 177: Filter -x fa (BAM input) .. ok 178: Count -x fa (BAM input) .. ok 179: Filter -x fa (CRAM input) .. ok 180: Count -x fa (CRAM input) .. ok 181: Filter -x fa -x ha (SAM input) .. ok 182: Count -x fa -x ha (SAM input) .. ok 183: Filter -x fa -x ha (BAM input) .. ok 184: Count -x fa -x ha (BAM input) .. ok 185: Filter -x fa -x ha (CRAM input) .. ok 186: Count -x fa -x ha (CRAM input) .. ok 187: Filter -x fa,ha (SAM input) .. ok 188: Count -x fa,ha (SAM input) .. ok 189: Filter -x fa,ha (BAM input) .. ok 190: Count -x fa,ha (BAM input) .. ok 191: Filter -x fa,ha (CRAM input) .. ok 192: Count -x fa,ha (CRAM input) .. ok 193: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 194: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 195: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 196: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 197: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 198: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 199: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 200: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 201: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 202: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 203: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 204: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 205: Filter -x fa -r grp2 (SAM input) .. ok 206: Count -x fa -r grp2 (SAM input) .. ok 207: Filter -x fa -r grp2 (BAM input) .. ok 208: Count -x fa -r grp2 (BAM input) .. ok 209: Filter -x fa -r grp2 (CRAM input) .. ok 210: Count -x fa -r grp2 (CRAM input) .. ok 211: Filter -x RG -r grp2 (SAM input) .. ok 212: Count -x RG -r grp2 (SAM input) .. ok 213: Filter -x RG -r grp2 (BAM input) .. ok 214: Count -x RG -r grp2 (BAM input) .. ok 215: Filter -x RG -r grp2 (CRAM input) .. ok 216: Count -x RG -r grp2 (CRAM input) .. ok 217: Filter -m 10 (SAM input) .. ok 218: Count -m 10 (SAM input) .. ok 219: Filter -m 10 (BAM input) .. ok 220: Count -m 10 (BAM input) .. ok 221: Filter -m 10 (CRAM input) .. ok 222: Count -m 10 (CRAM input) .. ok 223: Filter -m 11 (SAM input) .. ok 224: Count -m 11 (SAM input) .. ok 225: Filter -m 11 (BAM input) .. ok 226: Count -m 11 (BAM input) .. ok 227: Filter -m 11 (CRAM input) .. ok 228: Count -m 11 (CRAM input) .. ok 229: Filter -m 15 (SAM input) .. ok 230: Count -m 15 (SAM input) .. ok 231: Filter -m 15 (BAM input) .. ok 232: Count -m 15 (BAM input) .. ok 233: Filter -m 15 (CRAM input) .. ok 234: Count -m 15 (CRAM input) .. ok 235: Filter -m 16 (SAM input) .. ok 236: Count -m 16 (SAM input) .. ok 237: Filter -m 16 (BAM input) .. ok 238: Count -m 16 (BAM input) .. ok 239: Filter -m 16 (CRAM input) .. ok 240: Count -m 16 (CRAM input) .. ok 241: Filter -e !(flag & 128) && (flag & 2) (SAM input) .. ok 242: Count -e !(flag & 128) && (flag & 2) (SAM input) .. ok 243: Filter -e !(flag & 128) && (flag & 2) (BAM input) .. ok 244: Count -e !(flag & 128) && (flag & 2) (BAM input) .. ok 245: Filter -e !(flag & 128) && (flag & 2) (CRAM input) .. ok 246: Count -e !(flag & 128) && (flag & 2) (CRAM input) .. ok 247: Filter -e [BC] (SAM input) .. ok 248: Count -e [BC] (SAM input) .. ok 249: Filter -e [BC] (BAM input) .. ok 250: Count -e [BC] (BAM input) .. ok 251: Filter -e [BC] (CRAM input) .. ok 252: Count -e [BC] (CRAM input) .. ok 253: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (SAM input).. ok 254: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (SAM input).. ok 255: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (BAM input).. ok 256: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (BAM input).. ok 257: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (CRAM input).. ok 258: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (CRAM input).. ok 259: Filter -e mapq >= 50 (SAM input) .. ok 260: Count -e mapq >= 50 (SAM input) .. ok 261: Filter -e mapq >= 50 (BAM input) .. ok 262: Count -e mapq >= 50 (BAM input) .. ok 263: Filter -e mapq >= 50 (CRAM input) .. ok 264: Count -e mapq >= 50 (CRAM input) .. ok 265: Filter -e mapq >= 99 (SAM input) .. ok 266: Count -e mapq >= 99 (SAM input) .. ok 267: Filter -e mapq >= 99 (BAM input) .. ok 268: Count -e mapq >= 99 (BAM input) .. ok 269: Filter -e mapq >= 99 (CRAM input) .. ok 270: Count -e mapq >= 99 (CRAM input) .. ok 271: Filter -e mapq >= 100 (SAM input) .. ok 272: Count -e mapq >= 100 (SAM input) .. ok 273: Filter -e mapq >= 100 (BAM input) .. ok 274: Count -e mapq >= 100 (BAM input) .. ok 275: Filter -e mapq >= 100 (CRAM input) .. ok 276: Count -e mapq >= 100 (CRAM input) .. ok 277: 1bp reads file SAM -> BAM -> SAM .. ok 278: 1bp reads file SAM -> CRAM -> SAM .. ok 278: Region Z (BAM input) .. ok 279: Count Z (BAM input) .. ok 280: Region Z (CRAM input) .. ok 281: Count Z (CRAM input) .. ok 282: Region Z:30 (BAM input) .. ok 283: Count Z:30 (BAM input) .. ok 284: Region Z:30 (CRAM input) .. ok 285: Count Z:30 (CRAM input) .. ok 286: Region Z:20-40 (BAM input) .. ok 287: Count Z:20-40 (BAM input) .. ok 288: Region Z:20-40 (CRAM input) .. ok 289: Count Z:20-40 (CRAM input) .. ok 290: Region ref1 (BAM input) .. ok 291: Count ref1 (BAM input) .. ok 292: Region ref1 (CRAM input) .. ok 293: Count ref1 (CRAM input) .. ok 294: Region ref1:15 (BAM input) .. ok 295: Count ref1:15 (BAM input) .. ok 296: Region ref1:15 (CRAM input) .. ok 297: Count ref1:15 (CRAM input) .. ok 298: Region ref1:15-45 (BAM input) .. ok 299: Count ref1:15-45 (BAM input) .. ok 300: Region ref1:15-45 (CRAM input) .. ok 301: Count ref1:15-45 (CRAM input) .. ok 302: Region ref1:15-45 ref2 (BAM input) .. ok 303: Count ref1:15-45 ref2 (BAM input) .. ok 304: Region ref1:15-45 ref2 (CRAM input) .. ok 305: Count ref1:15-45 ref2 (CRAM input) .. ok 306: Region ref1:15-45 ref2:16 (BAM input) .. ok 307: Count ref1:15-45 ref2:16 (BAM input) .. ok 308: Region ref1:15-45 ref2:16 (CRAM input) .. ok 309: Count ref1:15-45 ref2:16 (CRAM input) .. ok 310: Region ref1:15-45 ref2:16-31 (BAM input) .. ok 311: Count ref1:15-45 ref2:16-31 (BAM input) .. ok 312: Region ref1:15-45 ref2:16-31 (CRAM input) .. ok 313: Count ref1:15-45 ref2:16-31 (CRAM input) .. ok 314: Region ref1:15-15 ref1:45-45 (BAM input) .. ok 315: Count ref1:15-15 ref1:45-45 (BAM input) .. ok 316: Region ref1:15-15 ref1:45-45 (CRAM input) .. ok 317: Count ref1:15-15 ref1:45-45 (CRAM input) .. ok 318: Region -f 128 ref1 (BAM input) .. ok 319: Count -f 128 ref1 (BAM input) .. ok 320: Region -f 128 ref1 (CRAM input) .. ok 321: Count -f 128 ref1 (CRAM input) .. ok 322: Region -q 50 ref1:15-45 (BAM input) .. ok 323: Count -q 50 ref1:15-45 (BAM input) .. ok 324: Region -q 50 ref1:15-45 (CRAM input) .. ok 325: Count -q 50 ref1:15-45 (CRAM input) .. ok 326: Region -r grp2 ref1:15-45 (BAM input) .. ok 327: Count -r grp2 ref1:15-45 (BAM input) .. ok 328: Region -r grp2 ref1:15-45 (CRAM input) .. ok 329: Count -r grp2 ref1:15-45 (CRAM input) .. ok 330: Region * (BAM input) .. ok 331: Count * (BAM input) .. ok 332: Region * (CRAM input) .. ok 333: Count * (CRAM input) .. ok 334: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed (BAM input).. ok 335: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed (BAM input).. ok 336: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed (CRAM input).. ok 337: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed (CRAM input).. ok 338: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.02.bed (BAM input).. ok 339: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.02.bed (BAM input).. ok 340: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.02.bed (CRAM input).. ok 341: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.02.bed (CRAM input).. ok 342: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed (BAM input).. ok 343: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed (BAM input).. ok 344: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed (CRAM input).. ok 345: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed (CRAM input).. ok 346: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.02.bed (BAM input).. ok 347: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.02.bed (BAM input).. ok 348: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.02.bed (CRAM input).. ok 349: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.02.bed (CRAM input).. ok 350: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z (BAM input).. ok 351: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z (BAM input).. ok 352: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z (CRAM input).. ok 353: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z (CRAM input).. ok 354: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:30 (BAM input).. ok 355: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:30 (BAM input).. ok 356: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:30 (CRAM input).. ok 357: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:30 (CRAM input).. ok 358: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:10-30 (BAM input).. ok 359: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:10-30 (BAM input).. ok 360: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:10-30 (CRAM input).. ok 361: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:10-30 (CRAM input).. ok 362: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:25-35 (BAM input).. ok 363: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:25-35 (BAM input).. ok 364: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:25-35 (CRAM input).. ok 365: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.002.01.bed Z:25-35 (CRAM input).. ok 366: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref1:11-16 (BAM input).. ok 367: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref1:11-16 (BAM input).. ok 368: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref1:11-16 (CRAM input).. ok 369: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref1:11-16 (CRAM input).. ok 370: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref2 (BAM input).. ok 371: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref2 (BAM input).. ok 372: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref2 (CRAM input).. ok 373: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref2 (CRAM input).. ok 374: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (BAM input).. ok 375: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (BAM input).. ok 376: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (CRAM input).. ok 377: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (CRAM input).. ok 378: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -r grp1 (BAM input).. ok 379: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -r grp1 (BAM input).. ok 380: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -r grp1 (CRAM input).. ok 381: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -r grp1 (CRAM input).. ok 382: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -f 128 (BAM input).. ok 383: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -f 128 (BAM input).. ok 384: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -f 128 (CRAM input).. ok 385: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -f 128 (CRAM input).. ok 386: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -q 5 (BAM input).. ok 387: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -q 5 (BAM input).. ok 388: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -q 5 (CRAM input).. ok 389: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -q 5 (CRAM input).. ok 390: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -r grp1 ref1:11-16 (BAM input).. ok 391: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -r grp1 ref1:11-16 (BAM input).. ok 392: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -r grp1 ref1:11-16 (CRAM input).. ok 393: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -r grp1 ref1:11-16 (CRAM input).. ok 394: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -M --unmap (BAM input).. ok 395: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -M --unmap (BAM input).. ok 396: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -M --unmap (CRAM input).. ok 397: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -M --unmap (CRAM input).. ok 398: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -M --unmap ref1:11-30 (BAM input).. ok 399: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -M --unmap ref1:11-30 (BAM input).. ok 400: Region -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -M --unmap ref1:11-30 (CRAM input).. ok 401: Count -L /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.01.bed -M --unmap ref1:11-30 (CRAM input).. ok 402: Make BAM with no M5/UR tags .. ok 403: Add @SQ with -t (SAM -> SAM) .. ok 404: Add @SQ with -T (SAM -> SAM) .. ok 405: Add @SQ with -t (BAM -> SAM) .. ok 406: Add @SQ with -T (BAM -> SAM) .. ok 407: Add @SQ with -t (SAM -> BAM) .. ok 408: Add @SQ with -T (SAM -> BAM) .. ok 409: Add @SQ with -t (BAM -> BAM) .. ok 410: Add @SQ with -T (BAM -> BAM) .. ok 411: Add @SQ with -t (SAM -> CRAM) .. ok 412: Add @SQ with -T (SAM -> CRAM) .. ok 413: Add @SQ with -t (BAM -> CRAM) .. ok 414: Add @SQ with -T (BAM -> CRAM) .. ok 415: Make CRAM with no UR field .. ok 416: Decoding CRAM with no UR field via -T .. ok 417: CIGAR B-operator removal .. ok 418: Big SAM -> BAM .. ok 419: Big SAM -> BAM (2 threads) .. ok 420: Big SAM -> BAM (4 threads) .. ok 421: Big SAM -> CRAM .. ok 422: Big SAM -> CRAM (2 threads) .. ok 423: Big SAM -> CRAM (4 threads) .. ok 424: Subsample 0.2 (SAM input) ............ ok 425: Subsample 0.5 (SAM input) ............ ok 426: Subsample 0.8 (SAM input) ............ ok 427: Subsample 0.2 (BAM input) ............ ok 428: Subsample 0.5 (BAM input) ............ ok 429: Subsample 0.8 (BAM input) ............ ok 430: Subsample 0.2 (CRAM input) ............ ok 431: Subsample 0.5 (CRAM input) ............ ok 432: Subsample 0.8 (CRAM input) ............ ok 433: SAM add PG .. ok 434: Unset dup flag, remove dt and do tags .. ok 435: Unmap dup flagged reads. .. ok 436: Unmap dup flagged reads. .. ok 437: fetch pairs .. ok 438: fetch pairs .. ok 439: fetch pairs .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -h 0 /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -h 1 /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -h 5 /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -h 29 /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -h 30 /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -n 0 /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -n 1 /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -n 5 /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_head: /builddir/build/BUILD/samtools-1.15.1/samtools head -h 5 -n 5 < /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.sam .. ok test_cat: Generating test data file .................. done Generate BAM file #1 .. ok Generate CRAM file #1 .. ok Generating test data file .................. done Generate BAM file #2 .. ok Generate CRAM file #2 .. ok Generating test data file .................. done Generate BAM file #3 .. ok Generate CRAM file #3 .. ok Generating test data file .................. done Generate BAM file #4 .. ok Generate CRAM file #4 .. ok 1: cat BAM files .. ok 2: cat recompressed BAM files .. ok 3: cat CRAM files .. ok 4: cat BAM files to stdout .. ok 5: cat recompressed BAM files to stdout .. ok 6: cat CRAM files to stdout .. ok 7: cat BAM files with new header .. ok 8: cat recompressed BAM files with new header .. ok 9: cat CRAM files with new header .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import -0 test/bam2fq/1.1.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq -0 /builddir/build/BUILD/samtools-1.15.1/test/0.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import -s test/bam2fq/1.1.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq -0 /builddir/build/BUILD/samtools-1.15.1/test/0.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import -s test/bam2fq/5.s.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/bam2fq/5.1.fq.expected test/bam2fq/5.2.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq -N -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import -i -1 test/bam2fq/12.1.fq.expected -2 test/bam2fq/12.2.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq -i --index-format 'i*i*' -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import --barcode-tag OX -i -1 test/bam2fq/12.1.fq.expected -2 test/bam2fq/12.2.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq --barcode-tag OX -i --index-format 'i*i*' -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import -T "" -1 test/bam2fq/6.1.fq.expected -2 test/bam2fq/6.2.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq -N -T RG,BC,QT -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import -T "*" -1 test/bam2fq/7.1.fq.expected -2 test/bam2fq/7.2.fq.expected | /builddir/build/BUILD/samtools-1.15.1/samtools fastq -N -T RG,BC,QT,MD,ia -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -R rgid .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -r ID:rgid .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -r '@RG ID:rgid' .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/import/2.interleaved.fq -T "" .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/import/3.interleaved.fq -i .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/import/4.aux.fq -T "*" .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/import/4.aux.fq -T "" .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import test/import/4.aux.fq -T XZ,XA,AA .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import --i1 test/import/5-i1.fq --i2 test/import/5-i2.fq --r1 test/import/5-r1.fq --r2 test/import/5-r2.fq .. ok test_import: /builddir/build/BUILD/samtools-1.15.1/samtools import --i1 test/import/5-i1.fq --i2 test/import/5-i2.fq --r1 test/import/5-r1.fq --r2 test/import/5-r2.fq --barcode-tag OX --quality-tag BZ .. ok test_bam2fq: Generate BAM file .. ok Generate CRAM file .. ok 1: fastq (SAM input) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 2: fastq -n (SAM input) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 3: fastq (BAM input) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 4: fastq -n (BAM input) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 5: fastq (CRAM input) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 6: fastq -n (CRAM input) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.002.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.003.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq --barcode-tag BC --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.004.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq --barcode-tag BC -O --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.004.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq --barcode-tag BC -O --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.010.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq --barcode-tag BC -N --index-format 'n*i*' --i1 /builddir/build/BUILD/samtools-1.15.1/test/bc_split.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -N -t -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -N -t -T MD,ia -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq --barcode-tag BC -i --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1/test/i.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.004.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq --barcode-tag BC -i --index-format 'i*i*' --i1 /builddir/build/BUILD/samtools-1.15.1/test/i.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -i --index-format 'i*i*' -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.703.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -N -1 /builddir/build/BUILD/samtools-1.15.1/test/o.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/o.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fasta -N -1 /builddir/build/BUILD/samtools-1.15.1/test/o.fa -2 /builddir/build/BUILD/samtools-1.15.1/test/o.fa /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -N -o /builddir/build/BUILD/samtools-1.15.1/test/o.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -N -s /tmp/V_3nyECr8t/bam2fq.discard.s.fq -0 /tmp/V_3nyECr8t/bam2fq.discard.0.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -T ba,bb,bc,bd,be,bf,bg /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.013.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq --index-format 'i8n1i8' --i1 /builddir/build/BUILD/samtools-1.15.1/test/i1.fq --i2 /builddir/build/BUILD/samtools-1.15.1/test/i2.fq -0 /builddir/build/BUILD/samtools-1.15.1/test/0.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.014.sam .. ok test_bam2fq: Generate BAM file (2 threads) .. ok Generate CRAM file (2 threads) .. ok 1: fastq (SAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 2: fastq -n (SAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 3: fastq (BAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 4: fastq -n (BAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 5: fastq (CRAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok 6: fastq -n (CRAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons [M::bam2fq_mainloop] processed 36 reads .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.002.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.003.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.004.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -O --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.004.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -O --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.010.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -N --index-format 'n*i*' --i1 /builddir/build/BUILD/samtools-1.15.1/test/bc_split.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -N -t -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -N -t -T MD,ia -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -i --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1/test/i.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.004.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -i --index-format 'i*i*' --i1 /builddir/build/BUILD/samtools-1.15.1/test/i.fq -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -i --index-format 'i*i*' -s /builddir/build/BUILD/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.005.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -1 /builddir/build/BUILD/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.703.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -N -1 /builddir/build/BUILD/samtools-1.15.1/test/o.fq -2 /builddir/build/BUILD/samtools-1.15.1/test/o.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fasta -@ 2 -N -1 /builddir/build/BUILD/samtools-1.15.1/test/o.fa -2 /builddir/build/BUILD/samtools-1.15.1/test/o.fa /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -N -o /builddir/build/BUILD/samtools-1.15.1/test/o.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -N -s /tmp/V_3nyECr8t/bam2fq.discard.s.fq -0 /tmp/V_3nyECr8t/bam2fq.discard.0.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.001.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 -T ba,bb,bc,bd,be,bf,bg /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.013.sam .. ok test_bam2fq: /builddir/build/BUILD/samtools-1.15.1/samtools fastq -@ 2 --index-format 'i8n1i8' --i1 /builddir/build/BUILD/samtools-1.15.1/test/i1.fq --i2 /builddir/build/BUILD/samtools-1.15.1/test/i2.fq -0 /builddir/build/BUILD/samtools-1.15.1/test/0.fq /builddir/build/BUILD/samtools-1.15.1/test/dat/bam2fq.014.sam .. ok test_depad: Generate BAM file .. ok depad (SAM input) .. ok depad -s (SAM input) .. ok depad -u (SAM input) .. ok depad -1 (SAM input) .. ok depad (BAM input) .. ok depad -s (BAM input) .. ok depad -u (BAM input) .. ok depad -1 (BAM input) .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/1_map_cigar.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/1_map_cigar_large.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/2_equal_cigar_full_seq.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/2_equal_cigar_full_seq_large.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/3_map_cigar_equal_seq.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/3_map_cigar_equal_seq_large.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/4_X_cigar_full_seq.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/4_X_cigar_full_seq_large.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/5_insert_cigar.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/5_insert_cigar_large.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa -i 0 /builddir/build/BUILD/samtools-1.15.1/test/stat/5_insert_cigar.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/7_supp.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/7_supp_large.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/8_secondary.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/8_secondary_large.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -S RG -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/1_map_cigar.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -S RG -r /builddir/build/BUILD/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1/test/stat/10_map_cigar.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -t /builddir/build/BUILD/samtools-1.15.1/test/stat/11.stats.targets /builddir/build/BUILD/samtools-1.15.1/test/stat/11_target.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/11_target.bam ref1:10-24 ref1:30-46 ref1:39-56 | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -g 4 -t /builddir/build/BUILD/samtools-1.15.1/test/stat/11.stats.targets /builddir/build/BUILD/samtools-1.15.1/test/stat/11_target.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -g 4 /builddir/build/BUILD/samtools-1.15.1/test/stat/11_target.bam ref1:10-24 ref1:30-46 ref1:39-56 | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/12_overlaps.bam -t /builddir/build/BUILD/samtools-1.15.1/test/stat/12_3reads.bed | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/12_overlaps.bam -p -t /builddir/build/BUILD/samtools-1.15.1/test/stat/12_3reads.bed | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/12_overlaps.bam -t /builddir/build/BUILD/samtools-1.15.1/test/stat/12_2reads.bed | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/12_overlaps.bam -p -t /builddir/build/BUILD/samtools-1.15.1/test/stat/12_2reads.bed | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/13_barcodes_ok.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/13_barcodes_ok_ox_bz.sam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/13_barcodes_fail_bc_length.sam | tail -n+4 /builddir/build/BUILD/samtools-1.15.1/test/stat/13.barcodes.fail.expected: No such file or directory .. expected failure test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/13_barcodes_fail_hyphen.sam | tail -n+4 /builddir/build/BUILD/samtools-1.15.1/test/stat/13.barcodes.fail.expected: No such file or directory .. expected failure test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1/test/stat/13_barcodes_fail_qt_length.sam | tail -n+4 /builddir/build/BUILD/samtools-1.15.1/test/stat/13.barcodes.fail.expected: No such file or directory .. expected failure test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -I s1 /builddir/build/BUILD/samtools-1.15.1/test/stat/11_target.bam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -I grp2 /builddir/build/BUILD/samtools-1.15.1/test/stat/11_target.bam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -I grp3 /builddir/build/BUILD/samtools-1.15.1/test/stat/11_target.bam | tail -n+4 .. ok test_stats: /builddir/build/BUILD/samtools-1.15.1/samtools stats -I Sample /builddir/build/BUILD/samtools-1.15.1/test/stat/11_target.bam | tail -n+4 .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_c.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.bam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_c.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -s 1 -O sam -b /tmp/58UUWeSlIH - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -r -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_c.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -cp -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a_regex.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b_regex.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -o - -s 1 -O sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_c.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -s 1 -p -c -t PG -O SAM - /tmp/V_3nyECr8t/merge.tag.1.bam /tmp/V_3nyECr8t/merge.tag.2.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -s 1 -p -c -n -t PG -O SAM - /tmp/V_3nyECr8t/merge.tag.3.bam /tmp/V_3nyECr8t/merge.tag.4.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge --no-PG -O SAM - /builddir/build/BUILD/samtools-1.15.1/test/merge/test_no_pg_rg_co.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge --no-PG -O SAM -L /builddir/build/BUILD/samtools-1.15.1/test/merge/merge.bed - /tmp/V_3nyECr8t/merge.bed.1.bam /tmp/V_3nyECr8t/merge.bed.2.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_c.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.bam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_c.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam -b /tmp/FiVKSq2ng_ - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -r -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_c.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -cp -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a_regex.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b_regex.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -o - -s 1 -O sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_c.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -s 1 -p -c -t PG -O SAM - /tmp/V_3nyECr8t/merge.tag.1.bam /tmp/V_3nyECr8t/merge.tag.2.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 -s 1 -p -c -n -t PG -O SAM - /tmp/V_3nyECr8t/merge.tag.3.bam /tmp/V_3nyECr8t/merge.tag.4.bam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 --no-PG -O SAM - /builddir/build/BUILD/samtools-1.15.1/test/merge/test_no_pg_rg_co.sam .. ok test_merge: /builddir/build/BUILD/samtools-1.15.1/samtools merge -@ 2 --no-PG -O SAM -L /builddir/build/BUILD/samtools-1.15.1/test/merge/merge.bed - /tmp/V_3nyECr8t/merge.bed.1.bam /tmp/V_3nyECr8t/merge.bed.2.bam .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/V_3nyECr8t/sortout .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -f /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/V_3nyECr8t/sortout.bam .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -o /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/V_3nyECr8t/sorttmp .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -n -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -t RG -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -n -t RG -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -t AS -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -t FI -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/V_3nyECr8t/sortout .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 -f /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/V_3nyECr8t/sortout.bam .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 -o /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/V_3nyECr8t/sorttmp .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 -n -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 -t RG -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 -n -t RG -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 -t AS -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam -O SAM -o - .. ok test_sort: /builddir/build/BUILD/samtools-1.15.1/samtools sort -@ 2 -t FI -m 10M /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam -O SAM -o - .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate --output-fmt=sam -O /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate -o /builddir/build/BUILD/samtools-1.15.1/test/collate/collate1.tmp.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate -o /builddir/build/BUILD/samtools-1.15.1/test/collate/collate2.tmp.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam /builddir/build/BUILD/samtools-1.15.1/test/collate/collate2.tmp .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate --output-fmt=sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam /builddir/build/BUILD/samtools-1.15.1/test/collate/collate3.tmp .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate --output-fmt=sam -f /builddir/build/BUILD/samtools-1.15.1/test/collate/fast_collate.sam -o /builddir/build/BUILD/samtools-1.15.1/test/collate/1_fast_collate.sam .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate --output-fmt=sam -f -r 4 /builddir/build/BUILD/samtools-1.15.1/test/collate/fast_collate.sam -o /builddir/build/BUILD/samtools-1.15.1/test/collate/2_fast_collate_with_tmp.sam .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate -@ 2 --output-fmt=sam -O /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate -@ 2 -o /builddir/build/BUILD/samtools-1.15.1/test/collate/collate1.tmp.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate -@ 2 -o /builddir/build/BUILD/samtools-1.15.1/test/collate/collate2.tmp.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam /builddir/build/BUILD/samtools-1.15.1/test/collate/collate2.tmp .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate -@ 2 --output-fmt=sam /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_d.sam /builddir/build/BUILD/samtools-1.15.1/test/collate/collate3.tmp .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate -@ 2 --output-fmt=sam -f /builddir/build/BUILD/samtools-1.15.1/test/collate/fast_collate.sam -o /builddir/build/BUILD/samtools-1.15.1/test/collate/1_fast_collate.sam .. ok test_collate: /builddir/build/BUILD/samtools-1.15.1/samtools collate -@ 2 --output-fmt=sam -f -r 4 /builddir/build/BUILD/samtools-1.15.1/test/collate/fast_collate.sam -o /builddir/build/BUILD/samtools-1.15.1/test/collate/2_fast_collate_with_tmp.sam .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/1_coord_sort.sam - ERR: [bam_mating_core] ERROR: Coordinate sorted, require grouped/sorted by queryname. .. expected failure test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/2_isize_overflow.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/3_reverse_read_pp_lt.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/4_reverse_read_pp_equal.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -cO sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/5_ct.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -cO sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/6_ct_replace.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/7_two_read_mapped.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/8_isize_overflow_64bit.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/1_coord_sort.sam - ERR: [bam_mating_core] ERROR: Coordinate sorted, require grouped/sorted by queryname. .. expected failure test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/2_isize_overflow.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/3_reverse_read_pp_lt.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/4_reverse_read_pp_equal.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -@ 2 -cO sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/5_ct.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -@ 2 -cO sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/6_ct_replace.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/7_two_read_mapped.sam - .. ok test_fixmate: /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1/test/fixmate/8_isize_overflow_64bit.sam - .. ok /builddir/build/BUILD/samtools-1.15.1/samtools calmd -uAr /builddir/build/BUILD/samtools-1.15.1/test/dat/mpileup.1.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/mpileup.ref.fa .. ok /builddir/build/BUILD/samtools-1.15.1/samtools calmd -@ 2 -uAr /builddir/build/BUILD/samtools-1.15.1/test/dat/mpileup.1.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/mpileup.ref.fa .. ok test_idxstat: /builddir/build/BUILD/samtools-1.15.1/samtools idxstats /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.bam .. ok test_idxstat: /builddir/build/BUILD/samtools-1.15.1/samtools idxstats /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.cram .. ok test_idxstat: /builddir/build/BUILD/samtools-1.15.1/samtools idxstats /builddir/build/BUILD/samtools-1.15.1/test/dat/test_input_1_a.sam .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/1.quickcheck.badeof.bam .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/2.quickcheck.badheader.bam .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/3.quickcheck.ok.bam .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/4.quickcheck.ok.bam .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/5.quickcheck.scramble30.truncated.cram .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/6.quickcheck.cram21.ok.cram .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/7.quickcheck.cram30.ok.cram .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/8.quickcheck.cram21.truncated.cram .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/9.quickcheck.cram30.truncated.cram .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/10.quickcheck.notargets.bam .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck -v /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/1.quickcheck.badeof.bam /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/2.quickcheck.badheader.bam /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/3.quickcheck.ok.bam /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/4.quickcheck.ok.bam /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/5.quickcheck.scramble30.truncated.cram /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/6.quickcheck.cram21.ok.cram /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/7.quickcheck.cram30.ok.cram /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/8.quickcheck.cram21.truncated.cram /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/9.quickcheck.cram30.truncated.cram /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/10.quickcheck.notargets.bam | sed 's,.*/quickcheck/,,' .. ok test_quickcheck: /builddir/build/BUILD/samtools-1.15.1/samtools quickcheck -uv /builddir/build/BUILD/samtools-1.15.1/test/quickcheck/10.quickcheck.notargets.bam | sed 's,.*/quickcheck/,,' .. ok test_reheader: /builddir/build/BUILD/samtools-1.15.1/samtools reheader /builddir/build/BUILD/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.bam | /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/ VN:.*//' .. ok test_reheader: /builddir/build/BUILD/samtools-1.15.1/samtools reheader /builddir/build/BUILD/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.v21.cram | /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/ VN:.*//' .. ok test_reheader: /builddir/build/BUILD/samtools-1.15.1/samtools reheader /builddir/build/BUILD/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.v30.cram | /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/ VN:.*//' .. ok test_reheader: /builddir/build/BUILD/samtools-1.15.1/samtools reheader --in-place /builddir/build/BUILD/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.v21.cram && /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.v21.cram | perl -pe 's/ VN:.*//' .. ok test_reheader: /builddir/build/BUILD/samtools-1.15.1/samtools reheader --in-place /builddir/build/BUILD/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.v30.cram && /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.v30.cram | perl -pe 's/ VN:.*//' .. ok test_reheader: /builddir/build/BUILD/samtools-1.15.1/samtools reheader -c "sed 's/2014 Genome/2019 Genome/g'" /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.bam | /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/ VN:.*//' .. ok test_reheader: /builddir/build/BUILD/samtools-1.15.1/samtools reheader -c "sed 's/2014 Genome/2019 Genome/g'" /builddir/build/BUILD/samtools-1.15.1/test/dat/view.001.tmp.v30.cram | /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/ VN:.*//' .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -O sam -m overwrite_all /builddir/build/BUILD/samtools-1.15.1/test/addrprg/1_fixup.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -O sam -m orphan_only /builddir/build/BUILD/samtools-1.15.1/test/addrprg/2_fixup_orphan.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -O sam -R '1#9' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/1_fixup.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -O sam -r '@RG\tID:1#8\tCN:SC' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/4_fixup_norg.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -O sam -m overwrite_all -R '1#8' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/1_fixup.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -O sam -r 'ID:1#8' -r 'CN:SC' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/4_fixup_norg.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -O sam -w -r '@RG\tID:1#8\tCN:Sanger\tDS:Testing the editing code.' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/1_fixup.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -m overwrite_all /builddir/build/BUILD/samtools-1.15.1/test/addrprg/1_fixup.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -m orphan_only /builddir/build/BUILD/samtools-1.15.1/test/addrprg/2_fixup_orphan.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -R '1#9' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/1_fixup.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -r '@RG\tID:1#8\tCN:SC' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/4_fixup_norg.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -m overwrite_all -R '1#8' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/1_fixup.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -r 'ID:1#8' -r 'CN:SC' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/4_fixup_norg.sam .. ok test_addrprg: /builddir/build/BUILD/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -w -r '@RG\tID:1#8\tCN:Sanger\tDS:Testing the editing code.' /builddir/build/BUILD/samtools-1.15.1/test/addrprg/1_fixup.sam .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/1_name_sort.sam - ERR: [markdup] error: queryname sorted, must be sorted by coordinate. .. expected failure test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/2_bad_order.sam - ERR: [markdup] error: not in coordinate sorted order. .. expected failure test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/3_missing_mc.sam - ERR: [markdup] error: no MC tag. Please run samtools fixmate on file first. [markdup] error: unable to assign pair hash key. .. expected failure test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/4_missing_ms.sam - ERR: [markdup] error: no ms score tag. Please run samtools fixmate on file first. [markdup] error: no ms score tag. Please run samtools fixmate on file first. .. expected failure test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/5_markdup.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -O sam -r --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/6_remove_dups.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -S -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/7_mark_supp_dup.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -S -d 100 --mode s -t -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/8_optical_dup.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -S -d 2500 --mode s -t --include-fails -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/9_optical_dup_qcfail.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -S -d 2500 --mode s -t -O sam --no-PG -S /builddir/build/BUILD/samtools-1.15.1/test/markdup/10_optical_chain.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+):([[:digit:]]+)$' --no-PG -S /builddir/build/BUILD/samtools-1.15.1/test/markdup/10_optical_chain.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+):([[:print:]]+)' --coords-order xyt --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/11_optical_dup_regex.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+)' --coords-order xy --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/11_optical_dup_regex.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+)$' --coords-order xy --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/12_optical_chain_regex.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/1_name_sort.sam - ERR: [markdup] error: queryname sorted, must be sorted by coordinate. .. expected failure test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/2_bad_order.sam - ERR: [markdup] error: not in coordinate sorted order. .. expected failure test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/3_missing_mc.sam - ERR: [markdup] error: no MC tag. Please run samtools fixmate on file first. [markdup] error: unable to assign pair hash key. .. expected failure test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/4_missing_ms.sam - ERR: [markdup] error: no ms score tag. Please run samtools fixmate on file first. [markdup] error: no ms score tag. Please run samtools fixmate on file first. .. expected failure test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/5_markdup.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -O sam -r --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/6_remove_dups.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -S -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/7_mark_supp_dup.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/8_optical_dup.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -S -d 2500 --mode s -t --include-fails -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/9_optical_dup_qcfail.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --no-PG -S /builddir/build/BUILD/samtools-1.15.1/test/markdup/10_optical_chain.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+):([[:digit:]]+)$' --no-PG -S /builddir/build/BUILD/samtools-1.15.1/test/markdup/10_optical_chain.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+):([[:print:]]+)' --coords-order xyt --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/11_optical_dup_regex.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+)' --coords-order xy --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/11_optical_dup_regex.sam - .. ok test_markdup: /builddir/build/BUILD/samtools-1.15.1/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+)$' --coords-order xy --no-PG /builddir/build/BUILD/samtools-1.15.1/test/markdup/12_optical_chain_regex.sam - .. ok test_bedcov: /builddir/build/BUILD/samtools-1.15.1/samtools bedcov /builddir/build/BUILD/samtools-1.15.1/test/bedcov/bedcov.bed /builddir/build/BUILD/samtools-1.15.1/test/bedcov/bedcov.bam .. ok test_bedcov: /builddir/build/BUILD/samtools-1.15.1/samtools bedcov -j /builddir/build/BUILD/samtools-1.15.1/test/bedcov/bedcov.bed /builddir/build/BUILD/samtools-1.15.1/test/bedcov/bedcov.bam .. ok test_bedcov: /builddir/build/BUILD/samtools-1.15.1/samtools bedcov -g512 -G2048 /builddir/build/BUILD/samtools-1.15.1/test/bedcov/bedcov_gG.bed /builddir/build/BUILD/samtools-1.15.1/test/bedcov/bedcov.bam .. ok test_split: /builddir/build/BUILD/samtools-1.15.1/samtools split --output-fmt sam -u /builddir/build/BUILD/samtools-1.15.1/test/split/split.tmp.unk.sam -f /builddir/build/BUILD/samtools-1.15.1/test/split/split.tmp.%!.%. /builddir/build/BUILD/samtools-1.15.1/test/split/split.sam .. ok test_split: /builddir/build/BUILD/samtools-1.15.1/samtools split -@ 2 --output-fmt sam -u /builddir/build/BUILD/samtools-1.15.1/test/split/split.tmp.unk.sam -f /builddir/build/BUILD/samtools-1.15.1/test/split/split.tmp.%!.%. /builddir/build/BUILD/samtools-1.15.1/test/split/split.sam .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG /tmp/V_3nyECr8t/longref.sam.gz .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG /tmp/V_3nyECr8t/longref.sam.gz CHROMOSOME_I:10000000114-10000000168 .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools view -h --no-PG -L /builddir/build/BUILD/samtools-1.15.1/test/large_pos/test.bed /tmp/V_3nyECr8t/longref.sam.gz .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools sort -O sam --no-PG -m 10M /builddir/build/BUILD/samtools-1.15.1/test/large_pos/longref_name.sam .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools merge -O sam --no-PG - /builddir/build/BUILD/samtools-1.15.1/test/large_pos/longref.sam /builddir/build/BUILD/samtools-1.15.1/test/large_pos/longref2.sam .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools depth /builddir/build/BUILD/samtools-1.15.1/test/large_pos/longref.sam .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools depth -b /builddir/build/BUILD/samtools-1.15.1/test/large_pos/test.bed /builddir/build/BUILD/samtools-1.15.1/test/large_pos/longref.sam .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools tview -d T -p CHROMOSOME_I:10000000000 /tmp/V_3nyECr8t/longref.sam.gz .. ok test_large_positions: /builddir/build/BUILD/samtools-1.15.1/samtools sort -O sam --no-PG -n -m 10M test/large_pos/longref3.sam | /builddir/build/BUILD/samtools-1.15.1/samtools fixmate -O sam --no-PG - - | /builddir/build/BUILD/samtools-1.15.1/samtools sort -O sam --no-PG -m 10M .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --hard-clip -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --filter-len 185 -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --fail-len 185 -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --original -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip --no-PG --output-fmt=sam -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --both-ends -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/2_both_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --hard-clip -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --filter-len 185 -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --fail-len 185 -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --original -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --output-fmt=sam -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_test_data.sam .. ok test_ampliconclip: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --both-ends -b /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/2_both_test_data.sam .. ok test_ampliconstats: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconstats -@ 2 -S -t 50 -d 1,20,100 /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_hard_clipped.expected.sam /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_soft_clipped.expected.sam /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/1_soft_clipped_strand.expected.sam /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/2_both_clipped.expected.sam | egrep -v 'Samtools version|Command line' .. ok test_ampliconstats: /builddir/build/BUILD/samtools-1.15.1/samtools ampliconstats -@ 2 -c 0 /builddir/build/BUILD/samtools-1.15.1/test/ampliconclip/multi_ref.bed /builddir/build/BUILD/samtools-1.15.1/test/ampliconstats/mixed_clipped.sam | egrep -v 'Samtools version|Command line' .. ok Number of tests: total .. 807 passed .. 776 failed .. 0 expected failure .. 31 unexpected pass .. 0 test/merge/test_bam_translate test/merge/test_bam_translate.tmp test/merge/test_rtrans_build test/merge/test_trans_tbl_init cd test/mpileup && AWK="gawk" ../regression.sh mpileup.reg === Testing mpileup.reg regressions === EXPECTED FAIL: Task failed, but expected to fail; when running $samtools mpileup -ABQ0 -a -l xx.bed3 xx#depth3.bam Expected passes: 118 Unexpected passes: 0 Expected failures: 1 Unexpected failures: 0 => PASS cd test/mpileup && AWK="gawk" ../regression.sh depth.reg === Testing depth.reg regressions === EXPECTED FAIL: Task failed, but expected to fail; when running $samtools depth -a -b xx.bed3 xx#depth3.bam Expected passes: 47 Unexpected passes: 0 Expected failures: 1 Unexpected failures: 0 => PASS cd test/consensus && AWK="gawk" ../regression.sh consensus.reg === Testing consensus.reg regressions === Expected passes: 62 Unexpected passes: 0 Expected failures: 0 Unexpected failures: 0 => PASS + RPM_EC=0 ++ jobs -p + exit 0 Processing files: samtools-1.15.1-1.fc38.aarch64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.sic99z + umask 022 + cd /builddir/build/BUILD + cd samtools-1.15.1 + DOCDIR=/builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/doc/samtools + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/doc/samtools + cp -pr AUTHORS /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/doc/samtools + cp -pr ChangeLog.old /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/doc/samtools + cp -pr NEWS /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/doc/samtools + cp -pr examples/ /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/doc/samtools + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.McL8vd + umask 022 + cd /builddir/build/BUILD + cd samtools-1.15.1 + LICENSEDIR=/builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/licenses/samtools + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/licenses/samtools + cp -pr LICENSE /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64/usr/share/licenses/samtools + RPM_EC=0 ++ jobs -p + exit 0 Provides: samtools = 1.15.1-1.fc38 samtools(aarch-64) = 1.15.1-1.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/perl ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libhts.so.3()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libncursesw.so.6()(64bit) libtinfo.so.6()(64bit) libz.so.1()(64bit) rtld(GNU_HASH) Processing files: samtools-debugsource-1.15.1-1.fc38.aarch64 Provides: samtools-debugsource = 1.15.1-1.fc38 samtools-debugsource(aarch-64) = 1.15.1-1.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: samtools-debuginfo-1.15.1-1.fc38.aarch64 Provides: debuginfo(build-id) = 285fbde7dd6a660ad2ecedd6c166f701ec3d6da6 debuginfo(build-id) = 481d503e5e47d6ede87aeccd1891af671bf23293 debuginfo(build-id) = a47ec4c0fca544a595bcb5aa53f0ebb57ba3f4a0 debuginfo(build-id) = b0af8378ff89a534c4ec134a858b9b686868620a debuginfo(build-id) = b3bb9a0abf822d5a82922b3d7ac3b26f5f30c694 debuginfo(build-id) = df19285e626bffa85f48cafad3466ff9891ce287 debuginfo(build-id) = e3f50ff36acf70e49117bda45ea7dc12263b6170 samtools-debuginfo = 1.15.1-1.fc38 samtools-debuginfo(aarch-64) = 1.15.1-1.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: samtools-debugsource(aarch-64) = 1.15.1-1.fc38 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64 Wrote: /builddir/build/RPMS/samtools-1.15.1-1.fc38.aarch64.rpm Wrote: /builddir/build/RPMS/samtools-debugsource-1.15.1-1.fc38.aarch64.rpm Wrote: /builddir/build/RPMS/samtools-debuginfo-1.15.1-1.fc38.aarch64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.UlZp0m + umask 022 + cd /builddir/build/BUILD + cd samtools-1.15.1 + /usr/bin/rm -rf /builddir/build/BUILDROOT/samtools-1.15.1-1.fc38.aarch64 + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.ssKZAp + umask 022 + cd /builddir/build/BUILD + rm -rf samtools-1.15.1 samtools-1.15.1.gemspec + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild samtools-1.15.1-1.fc38.src.rpm Finish: build phase for samtools-1.15.1-1.fc38.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-aarch64-1660573597.814740/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-aarch64-1660573597.814740/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-aarch64-1660573597.814740/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/samtools-1.15.1-1.fc38.src.rpm) Config(child) 2 minutes 5 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