Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c294' (ED25519) to the list of known hosts.

You can reproduce this build on your computer by running:

  sudo dnf install copr-rpmbuild
  /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/8430413-fedora-rawhide-ppc64le --chroot fedora-rawhide-ppc64le


Version: 1.2
PID: 13217
Logging PID: 13218
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': True,
 'build_id': 8430413,
 'buildroot_pkgs': [],
 'chroot': 'fedora-rawhide-ppc64le',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': '2d899ccfd5b09eee6cd1da270e2b929e203dea90',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/dmalcolm/gcc-15-smoketest-3/samtools',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'samtools',
 'package_version': '1.15.1-5',
 'project_dirname': 'gcc-15-smoketest-3',
 'project_name': 'gcc-15-smoketest-3',
 'project_owner': 'dmalcolm',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/dmalcolm/gcc-15-smoketest-3/fedora-rawhide-ppc64le/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None},
           {'baseurl': 'https://fedorapeople.org/~dmalcolm/gcc/gcc-15-mass-prebuild/$basearch',
            'id': 'https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch',
            'name': 'Additional repo https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch'}],
 'sandbox': 'dmalcolm/gcc-15-smoketest-3--dmalcolm',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'storage': 0,
 'submitter': 'dmalcolm',
 'tags': [],
 'task_id': '8430413-fedora-rawhide-ppc64le',
 'timeout': 115200,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/dmalcolm/gcc-15-smoketest-3/samtools /var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/dmalcolm/gcc-15-smoketest-3/samtools', '/var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools'...

Running: git checkout 2d899ccfd5b09eee6cd1da270e2b929e203dea90 --

cmd: ['git', 'checkout', '2d899ccfd5b09eee6cd1da270e2b929e203dea90', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools
rc: 0
stdout: 
stderr: Note: switching to '2d899ccfd5b09eee6cd1da270e2b929e203dea90'.

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 <new-branch-name>

Or undo this operation with:

  git switch -

Turn off this advice by setting config variable advice.detachedHead to false

HEAD is now at 2d899cc automatic import of samtools

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/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
INFO: Reading stdout from command: curl --help all
INFO: Calling: curl -H Pragma: -o samtools-1.15.1.tar.bz2 --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/dmalcolm/gcc-15-smoketest-3/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  22.2M      0 --:--:-- --:--:-- --:--:-- 22.2M
INFO: Reading stdout from command: md5sum samtools-1.15.1.tar.bz2

/usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated
Running (timeout=115200): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools/samtools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1734990264.748555 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 6.0 starting (python version = 3.13.0, NVR = mock-6.0-1.fc41), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools/samtools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1734990264.748555 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
Start(bootstrap): init plugins
INFO: tmpfs initialized
INFO: selinux enabled
INFO: chroot_scan: initialized
INFO: compress_logs: initialized
Finish(bootstrap): init plugins
Start: init plugins
INFO: tmpfs initialized
INFO: selinux enabled
INFO: chroot_scan: initialized
INFO: compress_logs: initialized
Finish: init plugins
INFO: Signal handler active
Start: run
INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools/samtools.spec)  Config(fedora-rawhide-ppc64le)
Start: clean chroot
Finish: clean chroot
Mock Version: 6.0
INFO: Mock Version: 6.0
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-ppc64le-bootstrap-1734990264.748555/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
INFO: Guessed host environment type: unknown
INFO: Using container image: registry.fedoraproject.org/fedora:rawhide
INFO: Pulling image: registry.fedoraproject.org/fedora:rawhide
INFO: Tagging container image as mock-bootstrap-9eb11ec1-7684-40ce-be48-3e79d7f9a18c
INFO: Checking that 83c437c5ab6e579da81383882559b3fcce482f0058e114c5b021916dab21e895 image matches host's architecture
INFO: Copy content of container 83c437c5ab6e579da81383882559b3fcce482f0058e114c5b021916dab21e895 to /var/lib/mock/fedora-rawhide-ppc64le-bootstrap-1734990264.748555/root
INFO: mounting 83c437c5ab6e579da81383882559b3fcce482f0058e114c5b021916dab21e895 with podman image mount
INFO: image 83c437c5ab6e579da81383882559b3fcce482f0058e114c5b021916dab21e895 as /var/lib/containers/storage/overlay/51de13c60eb8609e0f5e7a539af317c22046cf95536a0ba1531552c9690daff0/merged
INFO: umounting image 83c437c5ab6e579da81383882559b3fcce482f0058e114c5b021916dab21e895 (/var/lib/containers/storage/overlay/51de13c60eb8609e0f5e7a539af317c22046cf95536a0ba1531552c9690daff0/merged) with podman image umount
INFO: Removing image mock-bootstrap-9eb11ec1-7684-40ce-be48-3e79d7f9a18c
INFO: Package manager dnf5 detected and used (fallback)
INFO: Not updating bootstrap chroot, bootstrap_image_ready=True
Start(bootstrap): creating root cache
Finish(bootstrap): creating root cache
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-ppc64le-1734990264.748555/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Package manager dnf5 detected and used (direct choice)
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.20.0-1.fc42.ppc64le
  rpm-sequoia-1.7.0-3.fc42.ppc64le
  dnf5-5.2.8.1-2.fc42.ppc64le
  dnf5-plugins-5.2.8.1-2.fc42.ppc64le
Start: installing minimal buildroot with dnf5
Updating and loading repositories:
 fedora                                 100% |   5.3 MiB/s |  20.2 MiB |  00m04s
 Copr repository                        100% |  25.2 MiB/s |   8.3 MiB |  00m00s
 Additional repo https_fedorapeople_org 100% |  88.2 KiB/s |  16.6 KiB |  00m00s
Repositories loaded.
Package                            Arch    Version                    Repository                                                             Size
Installing group/module packages:
 bash                              ppc64le 5.2.37-1.fc42              fedora                                                              8.7 MiB
 bzip2                             ppc64le 1.0.8-19.fc42              copr_base                                                         168.6 KiB
 coreutils                         ppc64le 9.5-11.fc42                copr_base                                                           9.1 MiB
 cpio                              ppc64le 2.15-2.fc41                fedora                                                              1.2 MiB
 diffutils                         ppc64le 3.10-8.fc42                copr_base                                                           1.7 MiB
 fedora-release-common             noarch  42-0.11                    fedora                                                             19.8 KiB
 findutils                         ppc64le 1:4.10.0-4.fc42            copr_base                                                           2.0 MiB
 gawk                              ppc64le 5.3.0-4.fc41               fedora                                                              4.5 MiB
 glibc-minimal-langpack            ppc64le 2.40.9000-24.fc42          copr_base                                                           0.0   B
 grep                              ppc64le 3.11-9.fc42                copr_base                                                           1.0 MiB
 gzip                              ppc64le 1.13-2.fc42                copr_base                                                         422.7 KiB
 info                              ppc64le 7.1.1-2.fc42               fedora                                                            741.5 KiB
 patch                             ppc64le 2.7.6-25.fc42              copr_base                                                         323.0 KiB
 redhat-rpm-config                 noarch  300-1.no_annobin.0.fc42    copr_base                                                         186.6 KiB
 rpm-build                         ppc64le 4.20.0-1.fc42              copr_base                                                         516.5 KiB
 sed                               ppc64le 4.9-3.fc41                 fedora                                                              1.0 MiB
 shadow-utils                      ppc64le 2:4.17.0~rc1-1.fc42        fedora                                                              4.9 MiB
 tar                               ppc64le 2:1.35-4.fc41              fedora                                                              3.2 MiB
 unzip                             ppc64le 6.0-65.fc42                fedora                                                              2.3 MiB
 util-linux                        ppc64le 2.40.2-8.fc42              fedora                                                             17.2 MiB
 which                             ppc64le 2.21-42.fc41               fedora                                                            248.0 KiB
 xz                                ppc64le 1:5.6.3-2.fc42             fedora                                                              1.5 MiB
Installing dependencies:
 add-determinism                   ppc64le 0.4.3-1.fc42               copr_base                                                           2.5 MiB
 alternatives                      ppc64le 1.31-1.fc42                fedora                                                             88.7 KiB
 ansible-srpm-macros               noarch  1-16.fc41                  fedora                                                             35.7 KiB
 audit-libs                        ppc64le 4.0.2-1.fc42               copr_base                                                         479.0 KiB
 authselect                        ppc64le 1.5.0-8.fc42               copr_base                                                         179.8 KiB
 authselect-libs                   ppc64le 1.5.0-8.fc42               copr_base                                                         865.4 KiB
 basesystem                        noarch  11-21.fc41                 fedora                                                              0.0   B
 binutils                          ppc64le 2.43.50-9.fc42             copr_base                                                          30.9 MiB
 build-reproducibility-srpm-macros noarch  0.4.3-1.fc42               copr_base                                                         735.0   B
 bzip2-libs                        ppc64le 1.0.8-19.fc42              copr_base                                                         135.0 KiB
 ca-certificates                   noarch  2024.2.69_v8.0.401-3.fc42  fedora                                                              2.6 MiB
 coreutils-common                  ppc64le 9.5-11.fc42                copr_base                                                          11.2 MiB
 cracklib                          ppc64le 2.9.11-6.fc42              copr_base                                                         417.1 KiB
 crypto-policies                   noarch  20241128-1.gitbb7b0b0.fc42 fedora                                                            137.3 KiB
 curl                              ppc64le 8.11.1-2.fc42              copr_base                                                         515.9 KiB
 cyrus-sasl-lib                    ppc64le 2.1.28-27.fc41             fedora                                                              3.5 MiB
 debugedit                         ppc64le 5.1-2.fc42                 copr_base                                                         305.4 KiB
 dwz                               ppc64le 0.15-8.fc42                copr_base                                                         383.5 KiB
 ed                                ppc64le 1.20.2-2.fc41              fedora                                                            282.8 KiB
 efi-srpm-macros                   noarch  5-13.fc42                  fedora                                                             40.2 KiB
 elfutils                          ppc64le 0.192-7.fc42               copr_base                                                           3.4 MiB
 elfutils-debuginfod-client        ppc64le 0.192-7.fc42               copr_base                                                         140.9 KiB
 elfutils-default-yama-scope       noarch  0.192-7.fc42               copr_base                                                           1.8 KiB
 elfutils-libelf                   ppc64le 0.192-7.fc42               copr_base                                                           1.2 MiB
 elfutils-libs                     ppc64le 0.192-7.fc42               copr_base                                                         862.5 KiB
 fedora-gpg-keys                   noarch  42-0.3                     fedora                                                            126.4 KiB
 fedora-release                    noarch  42-0.11                    fedora                                                              0.0   B
 fedora-release-identity-basic     noarch  42-0.11                    fedora                                                            719.0   B
 fedora-repos                      noarch  42-0.3                     fedora                                                              4.9 KiB
 fedora-repos-rawhide              noarch  42-0.3                     fedora                                                              2.2 KiB
 file                              ppc64le 5.45-8.fc42                fedora                                                            139.5 KiB
 file-libs                         ppc64le 5.45-8.fc42                fedora                                                             10.0 MiB
 filesystem                        ppc64le 3.18-29.fc42               fedora                                                            106.0   B
 filesystem-srpm-macros            noarch  3.18-29.fc42               fedora                                                             36.1 KiB
 fonts-srpm-macros                 noarch  1:2.0.5-17.fc41            fedora                                                             55.8 KiB
 forge-srpm-macros                 noarch  0.4.0-1.fc42               fedora                                                             38.9 KiB
 fpc-srpm-macros                   noarch  1.3-13.fc41                fedora                                                            144.0   B
 gdb-minimal                       ppc64le 15.2-4.fc42                copr_base                                                          15.1 MiB
 gdbm                              ppc64le 1:1.23-7.fc41              fedora                                                            928.3 KiB
 gdbm-libs                         ppc64le 1:1.23-7.fc41              fedora                                                            425.5 KiB
 ghc-srpm-macros                   noarch  1.9.2-1.fc42               fedora                                                            779.0   B
 glibc                             ppc64le 2.40.9000-24.fc42          copr_base                                                          11.3 MiB
 glibc-common                      ppc64le 2.40.9000-24.fc42          copr_base                                                           1.5 MiB
 glibc-gconv-extra                 ppc64le 2.40.9000-24.fc42          copr_base                                                          18.3 MiB
 gmp                               ppc64le 1:6.3.0-2.fc41             fedora                                                            850.3 KiB
 gnat-srpm-macros                  noarch  6-6.fc41                   fedora                                                              1.0 KiB
 go-srpm-macros                    noarch  3.6.0-5.fc42               fedora                                                             60.8 KiB
 jansson                           ppc64le 2.14-1.fc42                copr_base                                                         154.6 KiB
 json-c                            ppc64le 0.18-1.fc42                copr_base                                                         135.6 KiB
 kernel-srpm-macros                noarch  1.0-24.fc41                fedora                                                              1.9 KiB
 keyutils-libs                     ppc64le 1.6.3-4.fc42               copr_base                                                          96.5 KiB
 krb5-libs                         ppc64le 1.21.3-3.fc42              copr_base                                                           2.9 MiB
 libacl                            ppc64le 2.3.2-2.fc42               copr_base                                                          66.0 KiB
 libarchive                        ppc64le 3.7.7-1.fc42               copr_base                                                           1.3 MiB
 libattr                           ppc64le 2.5.2-4.fc41               fedora                                                            196.3 KiB
 libblkid                          ppc64le 2.40.2-8.fc42              fedora                                                            482.6 KiB
 libbrotli                         ppc64le 1.1.0-5.fc42               copr_base                                                         967.6 KiB
 libcap                            ppc64le 2.71-1.fc42                copr_base                                                         497.8 KiB
 libcap-ng                         ppc64le 0.8.5-3.fc42               copr_base                                                         158.1 KiB
 libcom_err                        ppc64le 1.47.1-6.fc42              fedora                                                            239.1 KiB
 libcurl                           ppc64le 8.11.1-2.fc42              copr_base                                                           1.0 MiB
 libeconf                          ppc64le 0.7.5-1.fc42               copr_base                                                          78.6 KiB
 libevent                          ppc64le 2.1.12-14.fc42             copr_base                                                           1.2 MiB
 libfdisk                          ppc64le 2.40.2-8.fc42              fedora                                                            611.0 KiB
 libffi                            ppc64le 3.4.6-3.fc42               fedora                                                            218.0 KiB
 libgcc                            ppc64le 15.0.0-0.2.fc42            https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch 282.8 KiB
 libgomp                           ppc64le 15.0.0-0.2.fc42            https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch 629.0 KiB
 libidn2                           ppc64le 2.3.7-2.fc42               copr_base                                                         391.3 KiB
 libmount                          ppc64le 2.40.2-8.fc42              fedora                                                            548.0 KiB
 libnghttp2                        ppc64le 1.64.0-1.fc42              fedora                                                            326.1 KiB
 libpkgconf                        ppc64le 2.3.0-1.fc42               copr_base                                                         131.9 KiB
 libpsl                            ppc64le 0.21.5-4.fc42              copr_base                                                         130.9 KiB
 libpwquality                      ppc64le 1.4.5-11.fc42              copr_base                                                         603.9 KiB
 librtas                           ppc64le 2.0.6-2.fc41               fedora                                                            497.6 KiB
 libselinux                        ppc64le 3.8-0.rc3.1.fc42           fedora                                                            259.5 KiB
 libsemanage                       ppc64le 3.8-0.rc3.1.fc42           fedora                                                            417.0 KiB
 libsepol                          ppc64le 3.8-0.rc3.1.fc42           fedora                                                              1.0 MiB
 libsmartcols                      ppc64le 2.40.2-8.fc42              fedora                                                            353.5 KiB
 libssh                            ppc64le 0.11.1-1.fc42              copr_base                                                         703.7 KiB
 libssh-config                     noarch  0.11.1-1.fc42              copr_base                                                         277.0   B
 libstdc++                         ppc64le 15.0.0-0.2.fc42            https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch   3.8 MiB
 libtasn1                          ppc64le 4.19.0-9.fc42              copr_base                                                         217.4 KiB
 libtirpc                          ppc64le 1.3.6-1.fc42               fedora                                                            276.8 KiB
 libtool-ltdl                      ppc64le 2.5.4-1.fc42               copr_base                                                          92.0 KiB
 libunistring                      ppc64le 1.1-8.fc42                 copr_base                                                           1.9 MiB
 libuuid                           ppc64le 2.40.2-8.fc42              fedora                                                            197.4 KiB
 libverto                          ppc64le 0.3.2-9.fc41               fedora                                                            197.2 KiB
 libxcrypt                         ppc64le 4.4.36-12.fc42             fedora                                                            333.0 KiB
 libxml2                           ppc64le 2.12.8-2.fc42              copr_base                                                           2.2 MiB
 libzstd                           ppc64le 1.5.6-2.fc41               fedora                                                            988.0 KiB
 lua-libs                          ppc64le 5.4.7-1.fc42               fedora                                                            521.0 KiB
 lua-srpm-macros                   noarch  1-14.fc41                  fedora                                                              1.3 KiB
 lz4-libs                          ppc64le 1.10.0-1.fc42              copr_base                                                         259.2 KiB
 mpfr                              ppc64le 4.2.1-5.fc42               copr_base                                                         905.5 KiB
 ncurses-base                      noarch  6.5-2.20240629.fc41        fedora                                                            326.3 KiB
 ncurses-libs                      ppc64le 6.5-2.20240629.fc41        fedora                                                              2.4 MiB
 ocaml-srpm-macros                 noarch  10-3.fc41                  fedora                                                              1.9 KiB
 openblas-srpm-macros              noarch  2-18.fc41                  fedora                                                            112.0   B
 openldap                          ppc64le 2.6.8-6.fc42               copr_base                                                         874.8 KiB
 openssl-libs                      ppc64le 1:3.2.2-8.fc42             copr_base                                                           7.6 MiB
 p11-kit                           ppc64le 0.25.5-4.fc42              copr_base                                                           2.7 MiB
 p11-kit-trust                     ppc64le 0.25.5-4.fc42              copr_base                                                         520.5 KiB
 package-notes-srpm-macros         noarch  0.5-12.fc41                fedora                                                              1.6 KiB
 pam                               ppc64le 1.7.0-3.fc42               copr_base                                                           4.2 MiB
 pam-libs                          ppc64le 1.7.0-3.fc42               copr_base                                                         282.1 KiB
 pcre2                             ppc64le 10.44-1.fc42.1             copr_base                                                         772.1 KiB
 pcre2-syntax                      noarch  10.44-1.fc42.1             copr_base                                                         251.6 KiB
 perl-srpm-macros                  noarch  1-56.fc41                  fedora                                                            861.0   B
 pkgconf                           ppc64le 2.3.0-1.fc42               copr_base                                                         111.0 KiB
 pkgconf-m4                        noarch  2.3.0-1.fc42               copr_base                                                          14.4 KiB
 pkgconf-pkg-config                ppc64le 2.3.0-1.fc42               copr_base                                                         990.0   B
 popt                              ppc64le 1.19-7.fc42                copr_base                                                         206.8 KiB
 publicsuffix-list-dafsa           noarch  20240107-4.fc41            fedora                                                             67.5 KiB
 pyproject-srpm-macros             noarch  1.16.3-1.fc42              fedora                                                              1.9 KiB
 python-srpm-macros                noarch  3.13-3.fc41                fedora                                                             51.0 KiB
 qt5-srpm-macros                   noarch  5.15.15-1.fc42             copr_base                                                         500.0   B
 qt6-srpm-macros                   noarch  6.8.1-4.fc42               copr_base                                                         456.0   B
 readline                          ppc64le 8.2-11.fc42                copr_base                                                         617.3 KiB
 rpm                               ppc64le 4.20.0-1.fc42              copr_base                                                           4.1 MiB
 rpm-build-libs                    ppc64le 4.20.0-1.fc42              copr_base                                                         259.9 KiB
 rpm-libs                          ppc64le 4.20.0-1.fc42              copr_base                                                         973.9 KiB
 rpm-sequoia                       ppc64le 1.7.0-3.fc42               copr_base                                                           2.7 MiB
 rust-srpm-macros                  noarch  26.3-3.fc42                fedora                                                              4.8 KiB
 setup                             noarch  2.15.0-5.fc41              fedora                                                            720.7 KiB
 sqlite-libs                       ppc64le 3.47.2-1.fc42              fedora                                                              1.8 MiB
 systemd-libs                      ppc64le 257.1-1.fc42               fedora                                                              2.9 MiB
 util-linux-core                   ppc64le 2.40.2-8.fc42              fedora                                                              6.2 MiB
 xxhash-libs                       ppc64le 0.8.2-4.fc42               fedora                                                            211.9 KiB
 xz-libs                           ppc64le 1:5.6.3-2.fc42             fedora                                                            394.1 KiB
 zig-srpm-macros                   noarch  1-3.fc41                   fedora                                                              1.1 KiB
 zip                               ppc64le 3.0-42.fc42                fedora                                                            883.2 KiB
 zlib-ng-compat                    ppc64le 2.2.2-1.fc42               fedora                                                            197.7 KiB
 zstd                              ppc64le 1.5.6-2.fc41               fedora                                                              2.1 MiB
Installing groups:
 Buildsystem building group                                                                                                                      

Transaction Summary:
 Installing:       155 packages

Total size of inbound packages is 55 MiB. Need to download 55 MiB.
After this operation, 252 MiB extra will be used (install 252 MiB, remove 0 B).
[  1/155] fedora-release-common-0:42-0. 100% | 294.6 KiB/s |  23.9 KiB |  00m00s
[  2/155] cpio-0:2.15-2.fc41.ppc64le    100% |   1.8 MiB/s | 299.5 KiB |  00m00s
[  3/155] info-0:7.1.1-2.fc42.ppc64le   100% |   4.6 MiB/s | 201.4 KiB |  00m00s
[  4/155] bash-0:5.2.37-1.fc42.ppc64le  100% |   8.1 MiB/s |   1.9 MiB |  00m00s
[  5/155] gawk-0:5.3.0-4.fc41.ppc64le   100% |   7.1 MiB/s |   1.1 MiB |  00m00s
[  6/155] sed-0:4.9-3.fc41.ppc64le      100% |   4.8 MiB/s | 323.2 KiB |  00m00s
[  7/155] tar-2:1.35-4.fc41.ppc64le     100% |  10.8 MiB/s | 882.9 KiB |  00m00s
[  8/155] shadow-utils-2:4.17.0~rc1-1.f 100% |  13.7 MiB/s |   1.3 MiB |  00m00s
[  9/155] unzip-0:6.0-65.fc42.ppc64le   100% |   2.9 MiB/s | 192.7 KiB |  00m00s
[ 10/155] which-0:2.21-42.fc41.ppc64le  100% |   1.3 MiB/s |  42.9 KiB |  00m00s
[ 11/155] xz-1:5.6.3-2.fc42.ppc64le     100% |   5.7 MiB/s | 479.1 KiB |  00m00s
[ 12/155] bzip2-0:1.0.8-19.fc42.ppc64le 100% | 853.5 KiB/s |  51.2 KiB |  00m00s
[ 13/155] util-linux-0:2.40.2-8.fc42.pp 100% |   9.2 MiB/s |   1.3 MiB |  00m00s
[ 14/155] coreutils-0:9.5-11.fc42.ppc64 100% |  17.8 MiB/s |   1.0 MiB |  00m00s
[ 15/155] diffutils-0:3.10-8.fc42.ppc64 100% |   6.9 MiB/s | 402.8 KiB |  00m00s
[ 16/155] findutils-1:4.10.0-4.fc42.ppc 100% |  15.6 MiB/s | 573.5 KiB |  00m00s
[ 17/155] glibc-minimal-langpack-0:2.40 100% |   6.3 MiB/s | 122.4 KiB |  00m00s
[ 18/155] grep-0:3.11-9.fc42.ppc64le    100% |  12.6 MiB/s | 296.9 KiB |  00m00s
[ 19/155] gzip-0:1.13-2.fc42.ppc64le    100% |   7.4 MiB/s | 166.7 KiB |  00m00s
[ 20/155] patch-0:2.7.6-25.fc42.ppc64le 100% |   6.1 MiB/s | 136.8 KiB |  00m00s
[ 21/155] redhat-rpm-config-0:300-1.no_ 100% |   3.9 MiB/s |  76.6 KiB |  00m00s
[ 22/155] rpm-build-0:4.20.0-1.fc42.ppc 100% |   4.3 MiB/s |  69.7 KiB |  00m00s
[ 23/155] fedora-repos-0:42-0.3.noarch  100% | 510.6 KiB/s |   9.2 KiB |  00m00s
[ 24/155] filesystem-0:3.18-29.fc42.ppc 100% |  10.8 MiB/s |   1.1 MiB |  00m00s
[ 25/155] ncurses-libs-0:6.5-2.20240629 100% |   3.7 MiB/s | 378.3 KiB |  00m00s
[ 26/155] gmp-1:6.3.0-2.fc41.ppc64le    100% |   3.3 MiB/s | 309.0 KiB |  00m00s
[ 27/155] libattr-0:2.5.2-4.fc41.ppc64l 100% | 727.2 KiB/s |  18.9 KiB |  00m00s
[ 28/155] libxcrypt-0:4.4.36-12.fc42.pp 100% |   5.2 MiB/s | 127.4 KiB |  00m00s
[ 29/155] setup-0:2.15.0-5.fc41.noarch  100% |   7.5 MiB/s | 154.4 KiB |  00m00s
[ 30/155] libblkid-0:2.40.2-8.fc42.ppc6 100% |   5.3 MiB/s | 141.6 KiB |  00m00s
[ 31/155] libfdisk-0:2.40.2-8.fc42.ppc6 100% |   5.4 MiB/s | 175.7 KiB |  00m00s
[ 32/155] libmount-0:2.40.2-8.fc42.ppc6 100% |   6.0 MiB/s | 177.8 KiB |  00m00s
[ 33/155] librtas-0:2.0.6-2.fc41.ppc64l 100% |   2.8 MiB/s |  81.3 KiB |  00m00s
[ 34/155] libsmartcols-0:2.40.2-8.fc42. 100% |   3.3 MiB/s | 109.9 KiB |  00m00s
[ 35/155] libuuid-0:2.40.2-8.fc42.ppc64 100% |   1.8 MiB/s |  30.5 KiB |  00m00s
[ 36/155] zlib-ng-compat-0:2.2.2-1.fc42 100% |   2.3 MiB/s |  78.9 KiB |  00m00s
[ 37/155] xz-libs-1:5.6.3-2.fc42.ppc64l 100% |   3.5 MiB/s | 124.7 KiB |  00m00s
[ 38/155] systemd-libs-0:257.1-1.fc42.p 100% |   7.8 MiB/s | 825.8 KiB |  00m00s
[ 39/155] util-linux-core-0:2.40.2-8.fc 100% |   6.0 MiB/s | 580.8 KiB |  00m00s
[ 40/155] ed-0:1.20.2-2.fc41.ppc64le    100% |   2.7 MiB/s |  84.7 KiB |  00m00s
[ 41/155] ansible-srpm-macros-0:1-16.fc 100% |   1.1 MiB/s |  20.8 KiB |  00m00s
[ 42/155] efi-srpm-macros-0:5-13.fc42.n 100% |   1.1 MiB/s |  22.5 KiB |  00m00s
[ 43/155] filesystem-srpm-macros-0:3.18 100% |   1.2 MiB/s |  23.9 KiB |  00m00s
[ 44/155] file-0:5.45-8.fc42.ppc64le    100% |   1.4 MiB/s |  49.4 KiB |  00m00s
[ 45/155] fonts-srpm-macros-1:2.0.5-17. 100% |   1.3 MiB/s |  27.0 KiB |  00m00s
[ 46/155] forge-srpm-macros-0:0.4.0-1.f 100% |   1.1 MiB/s |  19.8 KiB |  00m00s
[ 47/155] fpc-srpm-macros-0:1.3-13.fc41 100% | 442.3 KiB/s |   8.0 KiB |  00m00s
[ 48/155] ghc-srpm-macros-0:1.9.2-1.fc4 100% | 434.2 KiB/s |   9.1 KiB |  00m00s
[ 49/155] gnat-srpm-macros-0:6-6.fc41.n 100% | 471.2 KiB/s |   9.0 KiB |  00m00s
[ 50/155] go-srpm-macros-0:3.6.0-5.fc42 100% |   1.5 MiB/s |  28.0 KiB |  00m00s
[ 51/155] kernel-srpm-macros-0:1.0-24.f 100% | 493.4 KiB/s |   9.9 KiB |  00m00s
[ 52/155] lua-srpm-macros-0:1-14.fc41.n 100% | 467.3 KiB/s |   8.9 KiB |  00m00s
[ 53/155] ocaml-srpm-macros-0:10-3.fc41 100% | 511.1 KiB/s |   9.2 KiB |  00m00s
[ 54/155] openblas-srpm-macros-0:2-18.f 100% | 350.7 KiB/s |   7.7 KiB |  00m00s
[ 55/155] package-notes-srpm-macros-0:0 100% | 517.3 KiB/s |   9.8 KiB |  00m00s
[ 56/155] perl-srpm-macros-0:1-56.fc41. 100% | 425.6 KiB/s |   8.5 KiB |  00m00s
[ 57/155] pyproject-srpm-macros-0:1.16. 100% | 602.9 KiB/s |  13.9 KiB |  00m00s
[ 58/155] python-srpm-macros-0:3.13-3.f 100% |   1.2 MiB/s |  23.7 KiB |  00m00s
[ 59/155] rust-srpm-macros-0:26.3-3.fc4 100% | 576.2 KiB/s |  12.1 KiB |  00m00s
[ 60/155] zig-srpm-macros-0:1-3.fc41.no 100% | 353.2 KiB/s |   8.1 KiB |  00m00s
[ 61/155] zip-0:3.0-42.fc42.ppc64le     100% |   5.5 MiB/s | 266.3 KiB |  00m00s
[ 62/155] ncurses-base-0:6.5-2.20240629 100% |   3.2 MiB/s |  88.4 KiB |  00m00s
[ 63/155] fedora-gpg-keys-0:42-0.3.noar 100% |   5.7 MiB/s | 133.6 KiB |  00m00s
[ 64/155] fedora-repos-rawhide-0:42-0.3 100% | 381.0 KiB/s |   8.8 KiB |  00m00s
[ 65/155] zstd-0:1.5.6-2.fc41.ppc64le   100% |   3.5 MiB/s | 504.1 KiB |  00m00s
[ 66/155] file-libs-0:5.45-8.fc42.ppc64 100% |   8.7 MiB/s | 774.1 KiB |  00m00s
[ 67/155] binutils-0:2.43.50-9.fc42.ppc 100% |  50.6 MiB/s |   6.3 MiB |  00m00s
[ 68/155] debugedit-0:5.1-2.fc42.ppc64l 100% |   1.6 MiB/s |  79.7 KiB |  00m00s
[ 69/155] elfutils-0:0.192-7.fc42.ppc64 100% |   9.2 MiB/s | 520.8 KiB |  00m00s
[ 70/155] elfutils-libelf-0:0.192-7.fc4 100% |   7.2 MiB/s | 214.4 KiB |  00m00s
[ 71/155] libzstd-0:1.5.6-2.fc41.ppc64l 100% |   8.7 MiB/s | 336.8 KiB |  00m00s
[ 72/155] basesystem-0:11-21.fc41.noarc 100% | 433.7 KiB/s |   7.4 KiB |  00m00s
[ 73/155] glibc-0:2.40.9000-24.fc42.ppc 100% |  45.0 MiB/s |   3.1 MiB |  00m00s
[ 74/155] pkgconf-pkg-config-0:2.3.0-1. 100% | 267.2 KiB/s |  10.4 KiB |  00m00s
[ 75/155] libarchive-0:3.7.7-1.fc42.ppc 100% |   9.1 MiB/s | 473.2 KiB |  00m00s
[ 76/155] popt-0:1.19-7.fc42.ppc64le    100% |   5.6 MiB/s |  62.5 KiB |  00m00s
[ 77/155] readline-0:8.2-11.fc42.ppc64l 100% |   8.8 MiB/s | 225.4 KiB |  00m00s
[ 78/155] rpm-0:4.20.0-1.fc42.ppc64le   100% |  16.8 MiB/s | 516.0 KiB |  00m00s
[ 79/155] rpm-build-libs-0:4.20.0-1.fc4 100% |   4.0 MiB/s | 105.6 KiB |  00m00s
[ 80/155] lua-libs-0:5.4.7-1.fc42.ppc64 100% |   5.0 MiB/s | 148.1 KiB |  00m00s
[ 81/155] rpm-libs-0:4.20.0-1.fc42.ppc6 100% |  12.4 MiB/s | 342.6 KiB |  00m00s
[ 82/155] curl-0:8.11.1-2.fc42.ppc64le  100% |  10.1 MiB/s | 226.5 KiB |  00m00s
[ 83/155] glibc-gconv-extra-0:2.40.9000 100% |  32.5 MiB/s |   1.5 MiB |  00m00s
[ 84/155] build-reproducibility-srpm-ma 100% | 375.9 KiB/s |  11.7 KiB |  00m00s
[ 85/155] sqlite-libs-0:3.47.2-1.fc42.p 100% |   9.2 MiB/s | 792.8 KiB |  00m00s
[ 86/155] qt5-srpm-macros-0:5.15.15-1.f 100% | 780.6 KiB/s |   9.4 KiB |  00m00s
[ 87/155] qt6-srpm-macros-0:6.8.1-4.fc4 100% | 749.5 KiB/s |   9.7 KiB |  00m00s
[ 88/155] dwz-0:0.15-8.fc42.ppc64le     100% |   5.2 MiB/s | 143.6 KiB |  00m00s
[ 89/155] pkgconf-0:2.3.0-1.fc42.ppc64l 100% |   3.1 MiB/s |  44.8 KiB |  00m00s
[ 90/155] pkgconf-m4-0:2.3.0-1.fc42.noa 100% |   1.1 MiB/s |  14.8 KiB |  00m00s
[ 91/155] libpkgconf-0:2.3.0-1.fc42.ppc 100% |   3.4 MiB/s |  41.8 KiB |  00m00s
[ 92/155] libselinux-0:3.8-0.rc3.1.fc42 100% |   4.1 MiB/s | 104.0 KiB |  00m00s
[ 93/155] bzip2-libs-0:1.0.8-19.fc42.pp 100% |   3.6 MiB/s |  48.3 KiB |  00m00s
[ 94/155] libacl-0:2.3.2-2.fc42.ppc64le 100% |   2.5 MiB/s |  25.8 KiB |  00m00s
[ 95/155] libsepol-0:3.8-0.rc3.1.fc42.p 100% |   8.1 MiB/s | 363.1 KiB |  00m00s
[ 96/155] libxml2-0:2.12.8-2.fc42.ppc64 100% |  20.8 MiB/s | 746.7 KiB |  00m00s
[ 97/155] lz4-libs-0:1.10.0-1.fc42.ppc6 100% |   3.9 MiB/s | 100.7 KiB |  00m00s
[ 98/155] crypto-policies-0:20241128-1. 100% |   3.8 MiB/s |  98.4 KiB |  00m00s
[ 99/155] openssl-libs-1:3.2.2-8.fc42.p 100% |  40.1 MiB/s |   2.4 MiB |  00m00s
[100/155] libffi-0:3.4.6-3.fc42.ppc64le 100% |   1.3 MiB/s |  38.2 KiB |  00m00s
[101/155] ca-certificates-0:2024.2.69_v 100% |  14.4 MiB/s | 944.5 KiB |  00m00s
[102/155] pcre2-0:10.44-1.fc42.1.ppc64l 100% |   9.8 MiB/s | 251.4 KiB |  00m00s
[103/155] pcre2-syntax-0:10.44-1.fc42.1 100% |   5.6 MiB/s | 150.4 KiB |  00m00s
[104/155] glibc-common-0:2.40.9000-24.f 100% |  13.6 MiB/s | 404.7 KiB |  00m00s
[105/155] elfutils-debuginfod-client-0: 100% |   3.6 MiB/s |  47.6 KiB |  00m00s
[106/155] elfutils-libs-0:0.192-7.fc42. 100% |  10.6 MiB/s | 292.8 KiB |  00m00s
[107/155] coreutils-common-0:9.5-11.fc4 100% |  35.6 MiB/s |   2.1 MiB |  00m00s
[108/155] libcap-0:2.71-1.fc42.ppc64le  100% |   3.3 MiB/s |  85.1 KiB |  00m00s
[109/155] libgcc-0:15.0.0-0.2.fc42.ppc6 100% | 654.8 KiB/s |  87.7 KiB |  00m00s
[110/155] add-determinism-0:0.4.3-1.fc4 100% |  22.3 MiB/s | 892.0 KiB |  00m00s
[111/155] alternatives-0:1.31-1.fc42.pp 100% |   1.3 MiB/s |  41.9 KiB |  00m00s
[112/155] jansson-0:2.14-1.fc42.ppc64le 100% |   4.0 MiB/s |  48.9 KiB |  00m00s
[113/155] audit-libs-0:4.0.2-1.fc42.ppc 100% |   6.5 MiB/s | 139.7 KiB |  00m00s
[114/155] libstdc++-0:15.0.0-0.2.fc42.p 100% |   5.1 MiB/s | 949.9 KiB |  00m00s
[115/155] authselect-libs-0:1.5.0-8.fc4 100% |  10.1 MiB/s | 207.1 KiB |  00m00s
[116/155] libcap-ng-0:0.8.5-3.fc42.ppc6 100% |   2.8 MiB/s |  31.9 KiB |  00m00s
[117/155] pam-0:1.7.0-3.fc42.ppc64le    100% |  21.6 MiB/s | 508.1 KiB |  00m00s
[118/155] gdbm-libs-1:1.23-7.fc41.ppc64 100% |   2.4 MiB/s |  61.7 KiB |  00m00s
[119/155] libtirpc-0:1.3.6-1.fc42.ppc64 100% |   3.7 MiB/s | 108.6 KiB |  00m00s
[120/155] libcom_err-0:1.47.1-6.fc42.pp 100% | 970.1 KiB/s |  27.2 KiB |  00m00s
[121/155] gdbm-1:1.23-7.fc41.ppc64le    100% |   2.6 MiB/s | 158.9 KiB |  00m00s
[122/155] pam-libs-0:1.7.0-3.fc42.ppc64 100% |   3.1 MiB/s |  60.9 KiB |  00m00s
[123/155] libeconf-0:0.7.5-1.fc42.ppc64 100% |   2.7 MiB/s |  38.3 KiB |  00m00s
[124/155] krb5-libs-0:1.21.3-3.fc42.ppc 100% |  26.5 MiB/s | 813.7 KiB |  00m00s
[125/155] libverto-0:0.3.2-9.fc41.ppc64 100% | 493.2 KiB/s |  22.2 KiB |  00m00s
[126/155] mpfr-0:4.2.1-5.fc42.ppc64le   100% |  13.3 MiB/s | 355.3 KiB |  00m00s
[127/155] libsemanage-0:3.8-0.rc3.1.fc4 100% |   1.7 MiB/s | 128.0 KiB |  00m00s
[128/155] p11-kit-0:0.25.5-4.fc42.ppc64 100% |  15.4 MiB/s | 425.5 KiB |  00m00s
[129/155] p11-kit-trust-0:0.25.5-4.fc42 100% |   5.4 MiB/s | 143.3 KiB |  00m00s
[130/155] rpm-sequoia-0:1.7.0-3.fc42.pp 100% |  27.9 MiB/s | 914.7 KiB |  00m00s
[131/155] authselect-0:1.5.0-8.fc42.ppc 100% |   6.0 MiB/s | 141.5 KiB |  00m00s
[132/155] libpwquality-0:1.4.5-11.fc42. 100% |   5.0 MiB/s | 106.7 KiB |  00m00s
[133/155] libtasn1-0:4.19.0-9.fc42.ppc6 100% |   3.3 MiB/s |  78.6 KiB |  00m00s
[134/155] libgomp-0:15.0.0-0.2.fc42.ppc 100% |   5.2 MiB/s | 348.4 KiB |  00m00s
[135/155] cracklib-0:2.9.11-6.fc42.ppc6 100% |   3.5 MiB/s |  79.1 KiB |  00m00s
[136/155] keyutils-libs-0:1.6.3-4.fc42. 100% |   1.5 MiB/s |  31.6 KiB |  00m00s
[137/155] elfutils-default-yama-scope-0 100% |   1.3 MiB/s |  12.9 KiB |  00m00s
[138/155] json-c-0:0.18-1.fc42.ppc64le  100% |   2.2 MiB/s |  46.6 KiB |  00m00s
[139/155] xxhash-libs-0:0.8.2-4.fc42.pp 100% |   1.1 MiB/s |  37.2 KiB |  00m00s
[140/155] libnghttp2-0:1.64.0-1.fc42.pp 100% |   2.7 MiB/s |  85.8 KiB |  00m00s
[141/155] gdb-minimal-0:15.2-4.fc42.ppc 100% |  46.7 MiB/s |   4.3 MiB |  00m00s
[142/155] fedora-release-0:42-0.11.noar 100% | 463.6 KiB/s |  13.0 KiB |  00m00s
[143/155] libcurl-0:8.11.1-2.fc42.ppc64 100% |   4.7 MiB/s | 410.8 KiB |  00m00s
[144/155] fedora-release-identity-basic 100% | 810.9 KiB/s |  13.8 KiB |  00m00s
[145/155] libbrotli-0:1.1.0-5.fc42.ppc6 100% |  12.8 MiB/s | 378.8 KiB |  00m00s
[146/155] libidn2-0:2.3.7-2.fc42.ppc64l 100% |   4.1 MiB/s | 114.0 KiB |  00m00s
[147/155] libpsl-0:0.21.5-4.fc42.ppc64l 100% |   2.7 MiB/s |  65.2 KiB |  00m00s
[148/155] publicsuffix-list-dafsa-0:202 100% |   2.5 MiB/s |  58.3 KiB |  00m00s
[149/155] libssh-0:0.11.1-1.fc42.ppc64l 100% |  10.4 MiB/s | 256.1 KiB |  00m00s
[150/155] openldap-0:2.6.8-6.fc42.ppc64 100% |  10.8 MiB/s | 276.7 KiB |  00m00s
[151/155] libtool-ltdl-0:2.5.4-1.fc42.p 100% |   3.4 MiB/s |  38.1 KiB |  00m00s
[152/155] libevent-0:2.1.12-14.fc42.ppc 100% |   9.4 MiB/s | 260.8 KiB |  00m00s
[153/155] libssh-config-0:0.11.1-1.fc42 100% | 895.5 KiB/s |   9.9 KiB |  00m00s
[154/155] libunistring-0:1.1-8.fc42.ppc 100% |  18.6 MiB/s | 572.8 KiB |  00m00s
[155/155] cyrus-sasl-lib-0:2.1.28-27.fc 100% |  10.0 MiB/s | 883.1 KiB |  00m00s
--------------------------------------------------------------------------------
[155/155] Total                         100% |  24.9 MiB/s |  55.1 MiB |  00m02s
Running transaction
Importing OpenPGP key 0x105EF944:
 UserID     : "Fedora (42) <fedora-42-primary@fedoraproject.org>"
 Fingerprint: B0F4950458F69E1150C6C5EDC8AC4916105EF944
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-42-primary
The key was successfully imported.
Importing OpenPGP key 0x105EF944:
 UserID     : "Fedora (42) <fedora-42-primary@fedoraproject.org>"
 Fingerprint: B0F4950458F69E1150C6C5EDC8AC4916105EF944
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-42-primary
The key was successfully imported.
Importing OpenPGP key 0xE99D6AD1:
 UserID     : "Fedora (41) <fedora-41-primary@fedoraproject.org>"
 Fingerprint: 466CF2D8B60BC3057AA9453ED0622462E99D6AD1
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-41-primary
The key was successfully imported.
Importing OpenPGP key 0x31645531:
 UserID     : "Fedora (43) <fedora-43-primary@fedoraproject.org>"
 Fingerprint: C6E7F081CF80E13146676E88829B606631645531
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-43-primary
The key was successfully imported.
[  1/157] Verify package files          100% | 222.0   B/s | 155.0   B |  00m01s
>>> Running pre-transaction scriptlet: filesystem-0:3.18-29.fc42.ppc64le
>>> Finished pre-transaction scriptlet: filesystem-0:3.18-29.fc42.ppc64le
>>> [RPM] /var/lib/mock/fedora-rawhide-ppc64le-1734990264.748555/root/var/cache/
[  2/157] Prepare transaction           100% |   1.5 KiB/s | 155.0   B |  00m00s
[  3/157] Installing libgcc-0:15.0.0-0. 100% |  92.6 MiB/s | 284.4 KiB |  00m00s
[  4/157] Installing libssh-config-0:0. 100% | 796.9 KiB/s | 816.0   B |  00m00s
[  5/157] Installing publicsuffix-list- 100% |  66.7 MiB/s |  68.3 KiB |  00m00s
[  6/157] Installing fedora-release-ide 100% |   0.0   B/s | 976.0   B |  00m00s
[  7/157] Installing fedora-repos-rawhi 100% |   2.4 MiB/s |   2.4 KiB |  00m00s
[  8/157] Installing fedora-gpg-keys-0: 100% |  16.8 MiB/s | 172.2 KiB |  00m00s
[  9/157] Installing fedora-repos-0:42- 100% |   5.6 MiB/s |   5.7 KiB |  00m00s
[ 10/157] Installing fedora-release-com 100% |  11.8 MiB/s |  24.1 KiB |  00m00s
[ 11/157] Installing fedora-release-0:4 100% |   0.0   B/s | 124.0   B |  00m00s
[ 12/157] Installing setup-0:2.15.0-5.f 100% |  22.9 MiB/s | 726.1 KiB |  00m00s
>>> [RPM] /etc/hosts created as /etc/hosts.rpmnew
[ 13/157] Installing filesystem-0:3.18- 100% |   1.5 MiB/s | 212.6 KiB |  00m00s
[ 14/157] Installing basesystem-0:11-21 100% | 121.1 KiB/s | 124.0   B |  00m00s
[ 15/157] Installing coreutils-common-0 100% | 159.9 MiB/s |  11.2 MiB |  00m00s
[ 16/157] Installing pcre2-syntax-0:10. 100% | 124.1 MiB/s | 254.1 KiB |  00m00s
[ 17/157] Installing pkgconf-m4-0:2.3.0 100% |   0.0   B/s |  14.8 KiB |  00m00s
[ 18/157] Installing qt6-srpm-macros-0: 100% |   0.0   B/s | 732.0   B |  00m00s
[ 19/157] Installing qt5-srpm-macros-0: 100% | 757.8 KiB/s | 776.0   B |  00m00s
[ 20/157] Installing ncurses-base-0:6.5 100% |  28.6 MiB/s | 351.7 KiB |  00m00s
[ 21/157] Installing glibc-minimal-lang 100% |   0.0   B/s | 124.0   B |  00m00s
[ 22/157] Installing ncurses-libs-0:6.5 100% | 152.2 MiB/s |   2.4 MiB |  00m00s
[ 23/157] Installing glibc-0:2.40.9000- 100% | 150.4 MiB/s |  11.3 MiB |  00m00s
[ 24/157] Installing bash-0:5.2.37-1.fc 100% | 163.6 MiB/s |   8.7 MiB |  00m00s
[ 25/157] Installing glibc-common-0:2.4 100% |  99.8 MiB/s |   1.5 MiB |  00m00s
[ 26/157] Installing glibc-gconv-extra- 100% | 168.4 MiB/s |  18.4 MiB |  00m00s
[ 27/157] Installing zlib-ng-compat-0:2 100% |  96.9 MiB/s | 198.5 KiB |  00m00s
[ 28/157] Installing xz-libs-1:5.6.3-2. 100% | 128.6 MiB/s | 395.2 KiB |  00m00s
[ 29/157] Installing bzip2-libs-0:1.0.8 100% | 132.9 MiB/s | 136.1 KiB |  00m00s
[ 30/157] Installing libuuid-0:2.40.2-8 100% |  96.9 MiB/s | 198.5 KiB |  00m00s
[ 31/157] Installing popt-0:1.19-7.fc42 100% |  34.7 MiB/s | 213.4 KiB |  00m00s
[ 32/157] Installing readline-0:8.2-11. 100% | 151.2 MiB/s | 619.4 KiB |  00m00s
[ 33/157] Installing libblkid-0:2.40.2- 100% | 157.5 MiB/s | 483.8 KiB |  00m00s
[ 34/157] Installing gmp-1:6.3.0-2.fc41 100% | 138.8 MiB/s | 852.5 KiB |  00m00s
[ 35/157] Installing libattr-0:2.5.2-4. 100% | 192.6 MiB/s | 197.2 KiB |  00m00s
[ 36/157] Installing libacl-0:2.3.2-2.f 100% |  65.2 MiB/s |  66.8 KiB |  00m00s
[ 37/157] Installing libxcrypt-0:4.4.36 100% |  82.0 MiB/s | 335.7 KiB |  00m00s
[ 38/157] Installing libzstd-0:1.5.6-2. 100% | 138.0 MiB/s | 989.2 KiB |  00m00s
[ 39/157] Installing elfutils-libelf-0: 100% | 156.1 MiB/s |   1.2 MiB |  00m00s
[ 40/157] Installing libstdc++-0:15.0.0 100% | 171.0 MiB/s |   3.8 MiB |  00m00s
[ 41/157] Installing gdbm-libs-1:1.23-7 100% | 139.1 MiB/s | 427.2 KiB |  00m00s
[ 42/157] Installing libeconf-0:0.7.5-1 100% |  39.2 MiB/s |  80.2 KiB |  00m00s
[ 43/157] Installing dwz-0:0.15-8.fc42. 100% | 125.3 MiB/s | 384.9 KiB |  00m00s
[ 44/157] Installing mpfr-0:4.2.1-5.fc4 100% | 126.5 MiB/s | 907.1 KiB |  00m00s
[ 45/157] Installing gawk-0:5.3.0-4.fc4 100% | 180.5 MiB/s |   4.5 MiB |  00m00s
[ 46/157] Installing unzip-0:6.0-65.fc4 100% | 213.2 MiB/s |   2.3 MiB |  00m00s
[ 47/157] Installing file-libs-0:5.45-8 100% | 237.2 MiB/s |  10.0 MiB |  00m00s
[ 48/157] Installing file-0:5.45-8.fc42 100% |  15.3 MiB/s | 140.9 KiB |  00m00s
[ 49/157] Installing crypto-policies-0: 100% |  14.5 MiB/s | 163.7 KiB |  00m00s
[ 50/157] Installing libsmartcols-0:2.4 100% | 115.4 MiB/s | 354.6 KiB |  00m00s
[ 51/157] Installing lua-libs-0:5.4.7-1 100% | 127.5 MiB/s | 522.2 KiB |  00m00s
[ 52/157] Installing libsepol-0:3.8-0.r 100% | 146.9 MiB/s |   1.0 MiB |  00m00s
[ 53/157] Installing lz4-libs-0:1.10.0- 100% | 127.1 MiB/s | 260.3 KiB |  00m00s
[ 54/157] Installing libffi-0:3.4.6-3.f 100% | 107.1 MiB/s | 219.4 KiB |  00m00s
[ 55/157] Installing pcre2-0:10.44-1.fc 100% | 151.1 MiB/s | 773.5 KiB |  00m00s
[ 56/157] Installing libselinux-0:3.8-0 100% |  84.9 MiB/s | 260.7 KiB |  00m00s
[ 57/157] Installing sed-0:4.9-3.fc41.p 100% |  98.6 MiB/s |   1.0 MiB |  00m00s
[ 58/157] Installing findutils-1:4.10.0 100% | 127.4 MiB/s |   2.0 MiB |  00m00s
[ 59/157] Installing grep-0:3.11-9.fc42 100% |  85.9 MiB/s |   1.0 MiB |  00m00s
[ 60/157] Installing xz-1:5.6.3-2.fc42. 100% | 107.9 MiB/s |   1.5 MiB |  00m00s
[ 61/157] Installing libmount-0:2.40.2- 100% | 134.1 MiB/s | 549.1 KiB |  00m00s
[ 62/157] Installing alternatives-0:1.3 100% |  88.1 MiB/s |  90.2 KiB |  00m00s
[ 63/157] Installing libcap-ng-0:0.8.5- 100% |  78.1 MiB/s | 160.0 KiB |  00m00s
[ 64/157] Installing audit-libs-0:4.0.2 100% | 117.5 MiB/s | 481.1 KiB |  00m00s
[ 65/157] Installing pam-libs-0:1.7.0-3 100% |  92.6 MiB/s | 284.4 KiB |  00m00s
[ 66/157] Installing libcap-0:2.71-1.fc 100% |  98.2 MiB/s | 502.8 KiB |  00m00s
[ 67/157] Installing systemd-libs-0:257 100% | 158.8 MiB/s |   2.9 MiB |  00m00s
[ 68/157] Installing libcom_err-0:1.47. 100% | 117.3 MiB/s | 240.2 KiB |  00m00s
[ 69/157] Installing libtasn1-0:4.19.0- 100% | 107.0 MiB/s | 219.2 KiB |  00m00s
[ 70/157] Installing p11-kit-0:0.25.5-4 100% | 118.0 MiB/s |   2.7 MiB |  00m00s
[ 71/157] Installing libunistring-0:1.1 100% | 155.6 MiB/s |   1.9 MiB |  00m00s
[ 72/157] Installing libidn2-0:2.3.7-2. 100% |  64.7 MiB/s | 397.3 KiB |  00m00s
[ 73/157] Installing libpsl-0:0.21.5-4. 100% |  64.5 MiB/s | 132.0 KiB |  00m00s
[ 74/157] Installing p11-kit-trust-0:0. 100% |  42.5 MiB/s | 522.3 KiB |  00m00s
[ 75/157] Installing openssl-libs-1:3.2 100% | 165.9 MiB/s |   7.6 MiB |  00m00s
[ 76/157] Installing coreutils-0:9.5-11 100% | 149.4 MiB/s |   9.1 MiB |  00m00s
[ 77/157] Installing ca-certificates-0: 100% | 695.6 KiB/s |   2.4 MiB |  00m03s
[ 78/157] Installing gzip-0:1.13-2.fc42 100% |  46.5 MiB/s | 428.2 KiB |  00m00s
[ 79/157] Installing authselect-libs-0: 100% |  57.3 MiB/s | 880.4 KiB |  00m00s
[ 80/157] Installing cracklib-0:2.9.11- 100% |  46.5 MiB/s | 428.5 KiB |  00m00s
[ 81/157] Installing libpwquality-0:1.4 100% |  60.2 MiB/s | 616.3 KiB |  00m00s
[ 82/157] Installing rpm-sequoia-0:1.7. 100% | 160.1 MiB/s |   2.7 MiB |  00m00s
[ 83/157] Installing libevent-0:2.1.12- 100% | 132.6 MiB/s |   1.2 MiB |  00m00s
[ 84/157] Installing util-linux-core-0: 100% | 187.9 MiB/s |   6.2 MiB |  00m00s
[ 85/157] Installing libsemanage-0:3.8- 100% |  81.8 MiB/s | 418.8 KiB |  00m00s
[ 86/157] Installing shadow-utils-2:4.1 100% | 100.0 MiB/s |   5.0 MiB |  00m00s
[ 87/157] Installing tar-2:1.35-4.fc41. 100% | 145.1 MiB/s |   3.2 MiB |  00m00s
[ 88/157] Installing zstd-0:1.5.6-2.fc4 100% | 172.2 MiB/s |   2.1 MiB |  00m00s
[ 89/157] Installing zip-0:3.0-42.fc42. 100% | 123.8 MiB/s | 887.1 KiB |  00m00s
[ 90/157] Installing gdbm-1:1.23-7.fc41 100% | 130.2 MiB/s | 933.2 KiB |  00m00s
[ 91/157] Installing cyrus-sasl-lib-0:2 100% | 177.2 MiB/s |   3.5 MiB |  00m00s
[ 92/157] Installing libfdisk-0:2.40.2- 100% | 149.5 MiB/s | 612.2 KiB |  00m00s
[ 93/157] Installing bzip2-0:1.0.8-19.f 100% |  56.3 MiB/s | 173.1 KiB |  00m00s
[ 94/157] Installing libxml2-0:2.12.8-2 100% | 149.1 MiB/s |   2.2 MiB |  00m00s
[ 95/157] Installing libarchive-0:3.7.7 100% | 139.4 MiB/s |   1.3 MiB |  00m00s
[ 96/157] Installing sqlite-libs-0:3.47 100% | 149.2 MiB/s |   1.8 MiB |  00m00s
[ 97/157] Installing rpm-libs-0:4.20.0- 100% | 136.1 MiB/s | 975.4 KiB |  00m00s
[ 98/157] Installing add-determinism-0: 100% | 155.1 MiB/s |   2.5 MiB |  00m00s
[ 99/157] Installing build-reproducibil 100% |   0.0   B/s |   1.0 KiB |  00m00s
[100/157] Installing ed-0:1.20.2-2.fc41 100% |  92.8 MiB/s | 285.1 KiB |  00m00s
[101/157] Installing patch-0:2.7.6-25.f 100% | 105.6 MiB/s | 324.5 KiB |  00m00s
[102/157] Installing filesystem-srpm-ma 100% |  35.9 MiB/s |  36.8 KiB |  00m00s
[103/157] Installing elfutils-default-y 100% | 291.9 KiB/s |   2.0 KiB |  00m00s
[104/157] Installing elfutils-libs-0:0. 100% | 140.7 MiB/s | 864.3 KiB |  00m00s
[105/157] Installing cpio-0:2.15-2.fc41 100% | 111.0 MiB/s |   1.2 MiB |  00m00s
[106/157] Installing diffutils-0:3.10-8 100% | 128.0 MiB/s |   1.7 MiB |  00m00s
[107/157] Installing librtas-0:2.0.6-2. 100% |  37.5 MiB/s | 499.7 KiB |  00m00s
[108/157] Installing libpkgconf-0:2.3.0 100% | 129.9 MiB/s | 133.0 KiB |  00m00s
[109/157] Installing pkgconf-0:2.3.0-1. 100% |  55.4 MiB/s | 113.5 KiB |  00m00s
[110/157] Installing pkgconf-pkg-config 100% |   1.7 MiB/s |   1.8 KiB |  00m00s
[111/157] Installing jansson-0:2.14-1.f 100% |  76.2 MiB/s | 156.0 KiB |  00m00s
[112/157] Installing libverto-0:0.3.2-9 100% |  97.2 MiB/s | 199.0 KiB |  00m00s
[113/157] Installing libgomp-0:15.0.0-0 100% | 153.9 MiB/s | 630.4 KiB |  00m00s
[114/157] Installing rpm-build-libs-0:4 100% | 127.3 MiB/s | 260.7 KiB |  00m00s
[115/157] Installing keyutils-libs-0:1. 100% |  47.8 MiB/s |  97.9 KiB |  00m00s
[116/157] Installing krb5-libs-0:1.21.3 100% | 139.7 MiB/s |   2.9 MiB |  00m00s
[117/157] Installing libtirpc-0:1.3.6-1 100% |  68.0 MiB/s | 278.5 KiB |  00m00s
[118/157] Installing pam-0:1.7.0-3.fc42 100% | 108.3 MiB/s |   4.2 MiB |  00m00s
[119/157] Installing libssh-0:0.11.1-1. 100% | 137.8 MiB/s | 705.8 KiB |  00m00s
[120/157] Installing json-c-0:0.18-1.fc 100% |  66.8 MiB/s | 136.8 KiB |  00m00s
[121/157] Installing xxhash-libs-0:0.8. 100% | 104.2 MiB/s | 213.3 KiB |  00m00s
[122/157] Installing libnghttp2-0:1.64. 100% | 159.8 MiB/s | 327.2 KiB |  00m00s
[123/157] Installing libbrotli-0:1.1.0- 100% | 135.3 MiB/s | 969.9 KiB |  00m00s
[124/157] Installing libtool-ltdl-0:2.5 100% |  90.9 MiB/s |  93.1 KiB |  00m00s
[125/157] Installing openldap-0:2.6.8-6 100% | 122.6 MiB/s | 878.5 KiB |  00m00s
[126/157] Installing libcurl-0:8.11.1-2 100% | 144.8 MiB/s |   1.0 MiB |  00m00s
[127/157] Installing elfutils-debuginfo 100% |  46.6 MiB/s | 143.2 KiB |  00m00s
[128/157] Installing binutils-0:2.43.50 100% | 168.2 MiB/s |  31.0 MiB |  00m00s
[129/157] Installing elfutils-0:0.192-7 100% | 170.4 MiB/s |   3.4 MiB |  00m00s
[130/157] Installing gdb-minimal-0:15.2 100% | 175.6 MiB/s |  15.1 MiB |  00m00s
[131/157] Installing debugedit-0:5.1-2. 100% | 100.3 MiB/s | 308.1 KiB |  00m00s
[132/157] Installing curl-0:8.11.1-2.fc 100% |  24.1 MiB/s | 518.4 KiB |  00m00s
[133/157] Installing rpm-0:4.20.0-1.fc4 100% |  77.9 MiB/s |   2.7 MiB |  00m00s
[134/157] Installing efi-srpm-macros-0: 100% |  40.2 MiB/s |  41.2 KiB |  00m00s
[135/157] Installing lua-srpm-macros-0: 100% |   0.0   B/s |   1.9 KiB |  00m00s
[136/157] Installing zig-srpm-macros-0: 100% |   0.0   B/s |   1.7 KiB |  00m00s
[137/157] Installing rust-srpm-macros-0 100% |   5.4 MiB/s |   5.6 KiB |  00m00s
[138/157] Installing perl-srpm-macros-0 100% |   0.0   B/s |   1.1 KiB |  00m00s
[139/157] Installing package-notes-srpm 100% |   0.0   B/s |   2.0 KiB |  00m00s
[140/157] Installing openblas-srpm-macr 100% |   0.0   B/s | 392.0   B |  00m00s
[141/157] Installing ocaml-srpm-macros- 100% |   0.0   B/s |   2.2 KiB |  00m00s
[142/157] Installing kernel-srpm-macros 100% |   0.0   B/s |   2.3 KiB |  00m00s
[143/157] Installing gnat-srpm-macros-0 100% |   0.0   B/s |   1.3 KiB |  00m00s
[144/157] Installing ghc-srpm-macros-0: 100% |   0.0   B/s |   1.0 KiB |  00m00s
[145/157] Installing fpc-srpm-macros-0: 100% |   0.0   B/s | 420.0   B |  00m00s
[146/157] Installing ansible-srpm-macro 100% |  35.4 MiB/s |  36.2 KiB |  00m00s
[147/157] Installing fonts-srpm-macros- 100% |  55.7 MiB/s |  57.0 KiB |  00m00s
[148/157] Installing forge-srpm-macros- 100% |  39.3 MiB/s |  40.3 KiB |  00m00s
[149/157] Installing go-srpm-macros-0:3 100% |  60.5 MiB/s |  62.0 KiB |  00m00s
[150/157] Installing python-srpm-macros 100% |  50.9 MiB/s |  52.2 KiB |  00m00s
[151/157] Installing redhat-rpm-config- 100% |  37.7 MiB/s | 193.2 KiB |  00m00s
[152/157] Installing rpm-build-0:4.20.0 100% |  85.5 MiB/s | 525.1 KiB |  00m00s
[153/157] Installing pyproject-srpm-mac 100% | 834.6 KiB/s |   2.5 KiB |  00m00s
[154/157] Installing util-linux-0:2.40. 100% | 174.3 MiB/s |  17.3 MiB |  00m00s
[155/157] Installing authselect-0:1.5.0 100% |  45.0 MiB/s | 184.2 KiB |  00m00s
[156/157] Installing which-0:2.21-42.fc 100% |  81.5 MiB/s | 250.2 KiB |  00m00s
[157/157] Installing info-0:7.1.1-2.fc4 100% | 183.6 KiB/s | 741.9 KiB |  00m04s
Warning: skipped OpenPGP checks for 77 packages from repositories: copr_base, https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch
Complete!
Finish: installing minimal buildroot with dnf5
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: add-determinism-0.4.3-1.fc42.ppc64le
alternatives-1.31-1.fc42.ppc64le
ansible-srpm-macros-1-16.fc41.noarch
audit-libs-4.0.2-1.fc42.ppc64le
authselect-1.5.0-8.fc42.ppc64le
authselect-libs-1.5.0-8.fc42.ppc64le
basesystem-11-21.fc41.noarch
bash-5.2.37-1.fc42.ppc64le
binutils-2.43.50-9.fc42.ppc64le
build-reproducibility-srpm-macros-0.4.3-1.fc42.noarch
bzip2-1.0.8-19.fc42.ppc64le
bzip2-libs-1.0.8-19.fc42.ppc64le
ca-certificates-2024.2.69_v8.0.401-3.fc42.noarch
coreutils-9.5-11.fc42.ppc64le
coreutils-common-9.5-11.fc42.ppc64le
cpio-2.15-2.fc41.ppc64le
cracklib-2.9.11-6.fc42.ppc64le
crypto-policies-20241128-1.gitbb7b0b0.fc42.noarch
curl-8.11.1-2.fc42.ppc64le
cyrus-sasl-lib-2.1.28-27.fc41.ppc64le
debugedit-5.1-2.fc42.ppc64le
diffutils-3.10-8.fc42.ppc64le
dwz-0.15-8.fc42.ppc64le
ed-1.20.2-2.fc41.ppc64le
efi-srpm-macros-5-13.fc42.noarch
elfutils-0.192-7.fc42.ppc64le
elfutils-debuginfod-client-0.192-7.fc42.ppc64le
elfutils-default-yama-scope-0.192-7.fc42.noarch
elfutils-libelf-0.192-7.fc42.ppc64le
elfutils-libs-0.192-7.fc42.ppc64le
fedora-gpg-keys-42-0.3.noarch
fedora-release-42-0.11.noarch
fedora-release-common-42-0.11.noarch
fedora-release-identity-basic-42-0.11.noarch
fedora-repos-42-0.3.noarch
fedora-repos-rawhide-42-0.3.noarch
file-5.45-8.fc42.ppc64le
file-libs-5.45-8.fc42.ppc64le
filesystem-3.18-29.fc42.ppc64le
filesystem-srpm-macros-3.18-29.fc42.noarch
findutils-4.10.0-4.fc42.ppc64le
fonts-srpm-macros-2.0.5-17.fc41.noarch
forge-srpm-macros-0.4.0-1.fc42.noarch
fpc-srpm-macros-1.3-13.fc41.noarch
gawk-5.3.0-4.fc41.ppc64le
gdb-minimal-15.2-4.fc42.ppc64le
gdbm-1.23-7.fc41.ppc64le
gdbm-libs-1.23-7.fc41.ppc64le
ghc-srpm-macros-1.9.2-1.fc42.noarch
glibc-2.40.9000-24.fc42.ppc64le
glibc-common-2.40.9000-24.fc42.ppc64le
glibc-gconv-extra-2.40.9000-24.fc42.ppc64le
glibc-minimal-langpack-2.40.9000-24.fc42.ppc64le
gmp-6.3.0-2.fc41.ppc64le
gnat-srpm-macros-6-6.fc41.noarch
go-srpm-macros-3.6.0-5.fc42.noarch
gpg-pubkey-105ef944-65ca83d1
gpg-pubkey-31645531-66b6dccf
gpg-pubkey-e99d6ad1-64d2612c
grep-3.11-9.fc42.ppc64le
gzip-1.13-2.fc42.ppc64le
info-7.1.1-2.fc42.ppc64le
jansson-2.14-1.fc42.ppc64le
json-c-0.18-1.fc42.ppc64le
kernel-srpm-macros-1.0-24.fc41.noarch
keyutils-libs-1.6.3-4.fc42.ppc64le
krb5-libs-1.21.3-3.fc42.ppc64le
libacl-2.3.2-2.fc42.ppc64le
libarchive-3.7.7-1.fc42.ppc64le
libattr-2.5.2-4.fc41.ppc64le
libblkid-2.40.2-8.fc42.ppc64le
libbrotli-1.1.0-5.fc42.ppc64le
libcap-2.71-1.fc42.ppc64le
libcap-ng-0.8.5-3.fc42.ppc64le
libcom_err-1.47.1-6.fc42.ppc64le
libcurl-8.11.1-2.fc42.ppc64le
libeconf-0.7.5-1.fc42.ppc64le
libevent-2.1.12-14.fc42.ppc64le
libfdisk-2.40.2-8.fc42.ppc64le
libffi-3.4.6-3.fc42.ppc64le
libgcc-15.0.0-0.2.fc42.ppc64le
libgomp-15.0.0-0.2.fc42.ppc64le
libidn2-2.3.7-2.fc42.ppc64le
libmount-2.40.2-8.fc42.ppc64le
libnghttp2-1.64.0-1.fc42.ppc64le
libpkgconf-2.3.0-1.fc42.ppc64le
libpsl-0.21.5-4.fc42.ppc64le
libpwquality-1.4.5-11.fc42.ppc64le
librtas-2.0.6-2.fc41.ppc64le
libselinux-3.8-0.rc3.1.fc42.ppc64le
libsemanage-3.8-0.rc3.1.fc42.ppc64le
libsepol-3.8-0.rc3.1.fc42.ppc64le
libsmartcols-2.40.2-8.fc42.ppc64le
libssh-0.11.1-1.fc42.ppc64le
libssh-config-0.11.1-1.fc42.noarch
libstdc++-15.0.0-0.2.fc42.ppc64le
libtasn1-4.19.0-9.fc42.ppc64le
libtirpc-1.3.6-1.fc42.ppc64le
libtool-ltdl-2.5.4-1.fc42.ppc64le
libunistring-1.1-8.fc42.ppc64le
libuuid-2.40.2-8.fc42.ppc64le
libverto-0.3.2-9.fc41.ppc64le
libxcrypt-4.4.36-12.fc42.ppc64le
libxml2-2.12.8-2.fc42.ppc64le
libzstd-1.5.6-2.fc41.ppc64le
lua-libs-5.4.7-1.fc42.ppc64le
lua-srpm-macros-1-14.fc41.noarch
lz4-libs-1.10.0-1.fc42.ppc64le
mpfr-4.2.1-5.fc42.ppc64le
ncurses-base-6.5-2.20240629.fc41.noarch
ncurses-libs-6.5-2.20240629.fc41.ppc64le
ocaml-srpm-macros-10-3.fc41.noarch
openblas-srpm-macros-2-18.fc41.noarch
openldap-2.6.8-6.fc42.ppc64le
openssl-libs-3.2.2-8.fc42.ppc64le
p11-kit-0.25.5-4.fc42.ppc64le
p11-kit-trust-0.25.5-4.fc42.ppc64le
package-notes-srpm-macros-0.5-12.fc41.noarch
pam-1.7.0-3.fc42.ppc64le
pam-libs-1.7.0-3.fc42.ppc64le
patch-2.7.6-25.fc42.ppc64le
pcre2-10.44-1.fc42.1.ppc64le
pcre2-syntax-10.44-1.fc42.1.noarch
perl-srpm-macros-1-56.fc41.noarch
pkgconf-2.3.0-1.fc42.ppc64le
pkgconf-m4-2.3.0-1.fc42.noarch
pkgconf-pkg-config-2.3.0-1.fc42.ppc64le
popt-1.19-7.fc42.ppc64le
publicsuffix-list-dafsa-20240107-4.fc41.noarch
pyproject-srpm-macros-1.16.3-1.fc42.noarch
python-srpm-macros-3.13-3.fc41.noarch
qt5-srpm-macros-5.15.15-1.fc42.noarch
qt6-srpm-macros-6.8.1-4.fc42.noarch
readline-8.2-11.fc42.ppc64le
redhat-rpm-config-300-1.no_annobin.0.fc42.noarch
rpm-4.20.0-1.fc42.ppc64le
rpm-build-4.20.0-1.fc42.ppc64le
rpm-build-libs-4.20.0-1.fc42.ppc64le
rpm-libs-4.20.0-1.fc42.ppc64le
rpm-sequoia-1.7.0-3.fc42.ppc64le
rust-srpm-macros-26.3-3.fc42.noarch
sed-4.9-3.fc41.ppc64le
setup-2.15.0-5.fc41.noarch
shadow-utils-4.17.0~rc1-1.fc42.ppc64le
sqlite-libs-3.47.2-1.fc42.ppc64le
systemd-libs-257.1-1.fc42.ppc64le
tar-1.35-4.fc41.ppc64le
unzip-6.0-65.fc42.ppc64le
util-linux-2.40.2-8.fc42.ppc64le
util-linux-core-2.40.2-8.fc42.ppc64le
which-2.21-42.fc41.ppc64le
xxhash-libs-0.8.2-4.fc42.ppc64le
xz-5.6.3-2.fc42.ppc64le
xz-libs-5.6.3-2.fc42.ppc64le
zig-srpm-macros-1-3.fc41.noarch
zip-3.0-42.fc42.ppc64le
zlib-ng-compat-2.2.2-1.fc42.ppc64le
zstd-1.5.6-2.fc41.ppc64le
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1721433600
Wrote: /builddir/build/SRPMS/samtools-1.15.1-5.fc42.src.rpm
Finish: rpmbuild -bs
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-ppc64le-1734990264.748555/root/var/log/dnf5.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
Finish: buildsrpm
INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-ro64k48v/samtools/samtools.spec) Config(child) 0 minutes 39 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
INFO: Start(/var/lib/copr-rpmbuild/results/samtools-1.15.1-5.fc42.src.rpm)  Config(fedora-rawhide-ppc64le)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-ppc64le-bootstrap-1734990264.748555/root.
INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-ppc64le-bootstrap-1734990264.748555/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-ppc64le-1734990264.748555/root.
INFO: calling preinit hooks
INFO: enabled root cache
Start: unpacking root cache
Finish: unpacking root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.20.0-1.fc42.ppc64le
  rpm-sequoia-1.7.0-3.fc42.ppc64le
  dnf5-5.2.8.1-2.fc42.ppc64le
  dnf5-plugins-5.2.8.1-2.fc42.ppc64le
Finish: chroot init
Start: build phase for samtools-1.15.1-5.fc42.src.rpm
Start: build setup for samtools-1.15.1-5.fc42.src.rpm
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1721433600
Wrote: /builddir/build/SRPMS/samtools-1.15.1-5.fc42.src.rpm
Updating and loading repositories:
 fedora                                 100% |  73.3 KiB/s |   5.8 KiB |  00m00s
 Additional repo https_fedorapeople_org 100% |  17.1 KiB/s |   1.5 KiB |  00m00s
 Copr repository                        100% |  18.1 KiB/s |   1.5 KiB |  00m00s
Repositories loaded.
Package                 Arch    Version              Repository                                                             Size
Installing:
 gcc                    ppc64le 15.0.0-0.2.fc42      https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch  96.5 MiB
 htslib-devel           ppc64le 1.15.1-6.fc42        copr_base                                                         411.0 KiB
 htslib-tools           ppc64le 1.15.1-6.fc42        copr_base                                                           3.0 MiB
 make                   ppc64le 1:4.4.1-9.fc42       copr_base                                                           1.9 MiB
 ncurses-devel          ppc64le 6.5-2.20240629.fc41  fedora                                                            870.1 KiB
 perl-FindBin           noarch  1.54-512.fc42        copr_base                                                           6.7 KiB
 perl-Getopt-Long       noarch  1:2.58-2.fc41        fedora                                                            144.5 KiB
 perl-interpreter       ppc64le 4:5.40.0-512.fc42    copr_base                                                         173.1 KiB
 perl-lib               ppc64le 0.65-512.fc42        copr_base                                                           8.5 KiB
 zlib-ng-compat-devel   ppc64le 2.2.2-1.fc42         fedora                                                            106.8 KiB
Installing dependencies:
 annobin-docs           noarch  12.79-1.fc42         copr_base                                                          98.6 KiB
 annobin-plugin-gcc     ppc64le 12.79-1.fc42         copr_base                                                         997.1 KiB
 cmake-filesystem       ppc64le 3.31.2-1.fc42        copr_base                                                           0.0   B
 cpp                    ppc64le 15.0.0-0.2.fc42      https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch  34.5 MiB
 gcc-plugin-annobin     ppc64le 15.0.0-0.2.fc42      https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch  67.4 KiB
 glibc-devel            ppc64le 2.40.9000-24.fc42    copr_base                                                           2.6 MiB
 groff-base             ppc64le 1.23.0-7.fc42        copr_base                                                           4.4 MiB
 htslib                 ppc64le 1.15.1-6.fc42        copr_base                                                           1.5 MiB
 kernel-headers         ppc64le 6.13.0-0.rc3.29.fc42 fedora                                                              6.5 MiB
 libasan                ppc64le 15.0.0-0.2.fc42      https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch   2.1 MiB
 libatomic              ppc64le 15.0.0-0.2.fc42      https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch  65.8 KiB
 libmpc                 ppc64le 1.3.1-6.fc42         copr_base                                                         278.0 KiB
 libubsan               ppc64le 15.0.0-0.2.fc42      https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch 652.6 KiB
 libxcrypt-devel        ppc64le 4.4.36-12.fc42       fedora                                                             30.5 KiB
 ncurses                ppc64le 6.5-2.20240629.fc41  fedora                                                              1.7 MiB
 ncurses-c++-libs       ppc64le 6.5-2.20240629.fc41  fedora                                                            393.4 KiB
 perl-AutoLoader        noarch  5.74-512.fc42        copr_base                                                          20.5 KiB
 perl-B                 ppc64le 1.89-512.fc42        copr_base                                                         539.9 KiB
 perl-Carp              noarch  1.54-511.fc41        fedora                                                             46.6 KiB
 perl-Class-Struct      noarch  0.68-512.fc42        copr_base                                                          25.4 KiB
 perl-Data-Dumper       ppc64le 2.189-512.fc42       copr_base                                                         134.3 KiB
 perl-Digest            noarch  1.20-511.fc41        fedora                                                             35.3 KiB
 perl-Digest-MD5        ppc64le 2.59-5.fc42          copr_base                                                         102.3 KiB
 perl-DynaLoader        ppc64le 1.56-512.fc42        copr_base                                                          32.1 KiB
 perl-Encode            ppc64le 4:3.21-511.fc42      copr_base                                                           4.8 MiB
 perl-Errno             ppc64le 1.38-512.fc42        copr_base                                                           8.4 KiB
 perl-Exporter          noarch  5.78-511.fc41        fedora                                                             54.3 KiB
 perl-Fcntl             ppc64le 1.18-512.fc42        copr_base                                                          91.7 KiB
 perl-File-Basename     noarch  2.86-512.fc42        copr_base                                                          14.0 KiB
 perl-File-Path         noarch  2.18-511.fc41        fedora                                                             63.5 KiB
 perl-File-Temp         noarch  1:0.231.100-511.fc41 fedora                                                            162.3 KiB
 perl-File-stat         noarch  1.14-512.fc42        copr_base                                                          12.5 KiB
 perl-FileHandle        noarch  2.05-512.fc42        copr_base                                                           9.3 KiB
 perl-Getopt-Std        noarch  1.14-512.fc42        copr_base                                                          11.2 KiB
 perl-HTTP-Tiny         noarch  0.090-1.fc42         fedora                                                            154.4 KiB
 perl-IO                ppc64le 1.55-512.fc42        copr_base                                                         189.6 KiB
 perl-IO-Socket-IP      noarch  0.43-1.fc42          fedora                                                            100.3 KiB
 perl-IO-Socket-SSL     noarch  2.089-1.fc42         fedora                                                            703.3 KiB
 perl-IPC-Open3         noarch  1.22-512.fc42        copr_base                                                          22.5 KiB
 perl-MIME-Base32       noarch  1.303-21.fc41        fedora                                                             30.7 KiB
 perl-MIME-Base64       ppc64le 3.16-511.fc42        copr_base                                                          92.8 KiB
 perl-Net-SSLeay        ppc64le 1.94-7.fc42          copr_base                                                           1.5 MiB
 perl-POSIX             ppc64le 2.20-512.fc42        copr_base                                                         325.3 KiB
 perl-PathTools         ppc64le 3.91-511.fc42        copr_base                                                         222.8 KiB
 perl-Pod-Escapes       noarch  1:1.07-511.fc41      fedora                                                             24.9 KiB
 perl-Pod-Perldoc       noarch  3.28.01-512.fc41     fedora                                                            163.7 KiB
 perl-Pod-Simple        noarch  1:3.45-511.fc41      fedora                                                            560.9 KiB
 perl-Pod-Usage         noarch  4:2.03-511.fc41      fedora                                                             84.8 KiB
 perl-Scalar-List-Utils ppc64le 5:1.68-1.fc42        copr_base                                                         151.2 KiB
 perl-SelectSaver       noarch  1.02-512.fc42        copr_base                                                           2.2 KiB
 perl-Socket            ppc64le 4:2.038-511.fc42     copr_base                                                         142.5 KiB
 perl-Storable          ppc64le 1:3.32-511.fc42      copr_base                                                         242.4 KiB
 perl-Symbol            noarch  1.09-512.fc42        copr_base                                                           6.8 KiB
 perl-Term-ANSIColor    noarch  5.01-512.fc41        fedora                                                             97.5 KiB
 perl-Term-Cap          noarch  1.18-511.fc41        fedora                                                             29.3 KiB
 perl-Text-ParseWords   noarch  3.31-511.fc41        fedora                                                             13.6 KiB
 perl-Text-Tabs+Wrap    noarch  2024.001-511.fc41    fedora                                                             22.6 KiB
 perl-Time-Local        noarch  2:1.350-511.fc41     fedora                                                             69.0 KiB
 perl-URI               noarch  5.31-1.fc42          fedora                                                            257.0 KiB
 perl-base              noarch  2.27-512.fc42        copr_base                                                          12.5 KiB
 perl-constant          noarch  1.33-512.fc41        fedora                                                             26.2 KiB
 perl-if                noarch  0.61.000-512.fc42    copr_base                                                           5.8 KiB
 perl-libnet            noarch  3.15-512.fc41        fedora                                                            289.4 KiB
 perl-libs              ppc64le 4:5.40.0-512.fc42    copr_base                                                          10.6 MiB
 perl-locale            noarch  1.12-512.fc42        copr_base                                                           6.5 KiB
 perl-mro               ppc64le 1.29-512.fc42        copr_base                                                          80.2 KiB
 perl-overload          noarch  1.37-512.fc42        copr_base                                                          71.5 KiB
 perl-overloading       noarch  0.02-512.fc42        copr_base                                                           4.8 KiB
 perl-parent            noarch  1:0.244-1.fc42       fedora                                                             10.3 KiB
 perl-podlators         noarch  1:6.0.2-2.fc41       fedora                                                            317.5 KiB
 perl-vars              noarch  1.05-512.fc42        copr_base                                                           3.9 KiB

Transaction Summary:
 Installing:        81 packages

Total size of inbound packages is 59 MiB. Need to download 59 MiB.
After this operation, 182 MiB extra will be used (install 182 MiB, remove 0 B).
[ 1/81] zlib-ng-compat-devel-0:2.2.2-1. 100% | 340.0 KiB/s |  38.1 KiB |  00m00s
[ 2/81] perl-Getopt-Long-1:2.58-2.fc41. 100% | 420.3 KiB/s |  63.9 KiB |  00m00s
[ 3/81] htslib-devel-0:1.15.1-6.fc42.pp 100% |   1.2 MiB/s |  99.5 KiB |  00m00s
[ 4/81] ncurses-devel-0:6.5-2.20240629. 100% |   2.0 MiB/s | 569.9 KiB |  00m00s
[ 5/81] htslib-tools-0:1.15.1-6.fc42.pp 100% |   7.5 MiB/s | 611.1 KiB |  00m00s
[ 6/81] make-1:4.4.1-9.fc42.ppc64le     100% |  11.8 MiB/s | 592.6 KiB |  00m00s
[ 7/81] perl-FindBin-0:1.54-512.fc42.no 100% |   1.1 MiB/s |  14.7 KiB |  00m00s
[ 8/81] perl-lib-0:0.65-512.fc42.ppc64l 100% |   1.7 MiB/s |  15.3 KiB |  00m00s
[ 9/81] perl-interpreter-4:5.40.0-512.f 100% |   3.7 MiB/s |  71.8 KiB |  00m00s
[10/81] perl-Exporter-0:5.78-511.fc41.n 100% | 835.5 KiB/s |  30.9 KiB |  00m00s
[11/81] perl-Pod-Usage-4:2.03-511.fc41. 100% |   1.0 MiB/s |  40.0 KiB |  00m00s
[12/81] ncurses-c++-libs-0:6.5-2.202406 100% | 339.0 KiB/s |  39.3 KiB |  00m00s
[13/81] perl-Text-ParseWords-0:3.31-511 100% | 502.3 KiB/s |  16.6 KiB |  00m00s
[14/81] perl-constant-0:1.33-512.fc41.n 100% | 822.5 KiB/s |  23.0 KiB |  00m00s
[15/81] htslib-0:1.15.1-6.fc42.ppc64le  100% |   5.6 MiB/s | 559.6 KiB |  00m00s
[16/81] gcc-0:15.0.0-0.2.fc42.ppc64le   100% |  54.7 MiB/s |  33.6 MiB |  00m01s
[17/81] perl-Carp-0:1.54-511.fc41.noarc 100% | 200.6 KiB/s |  28.9 KiB |  00m00s
[18/81] perl-Pod-Perldoc-0:3.28.01-512. 100% |   2.6 MiB/s |  86.1 KiB |  00m00s
[19/81] perl-File-Temp-1:0.231.100-511. 100% |   2.1 MiB/s |  59.1 KiB |  00m00s
[20/81] perl-podlators-1:6.0.2-2.fc41.n 100% |   1.7 MiB/s | 128.8 KiB |  00m00s
[21/81] perl-HTTP-Tiny-0:0.090-1.fc42.n 100% |   1.7 MiB/s |  56.5 KiB |  00m00s
[22/81] perl-parent-1:0.244-1.fc42.noar 100% | 582.4 KiB/s |  15.1 KiB |  00m00s
[23/81] perl-Pod-Simple-1:3.45-511.fc41 100% |   3.6 MiB/s | 219.0 KiB |  00m00s
[24/81] perl-Term-ANSIColor-0:5.01-512. 100% |   1.6 MiB/s |  47.7 KiB |  00m00s
[25/81] perl-Term-Cap-0:1.18-511.fc41.n 100% | 817.4 KiB/s |  22.1 KiB |  00m00s
[26/81] perl-File-Path-0:2.18-511.fc41. 100% |   1.3 MiB/s |  35.3 KiB |  00m00s
[27/81] perl-IO-Socket-SSL-0:2.089-1.fc 100% |   5.8 MiB/s | 231.2 KiB |  00m00s
[28/81] perl-Time-Local-2:1.350-511.fc4 100% |   1.2 MiB/s |  34.5 KiB |  00m00s
[29/81] perl-Pod-Escapes-1:1.07-511.fc4 100% | 707.6 KiB/s |  19.8 KiB |  00m00s
[30/81] perl-Text-Tabs+Wrap-0:2024.001- 100% | 780.4 KiB/s |  21.9 KiB |  00m00s
[31/81] perl-IO-Socket-IP-0:0.43-1.fc42 100% |   1.5 MiB/s |  42.2 KiB |  00m00s
[32/81] ncurses-0:6.5-2.20240629.fc41.p 100% |   8.3 MiB/s | 431.8 KiB |  00m00s
[33/81] perl-URI-0:5.31-1.fc42.noarch   100% |   4.7 MiB/s | 140.6 KiB |  00m00s
[34/81] perl-MIME-Base32-0:1.303-21.fc4 100% | 787.4 KiB/s |  20.5 KiB |  00m00s
[35/81] perl-libnet-0:3.15-512.fc41.noa 100% |   4.3 MiB/s | 128.5 KiB |  00m00s
[36/81] perl-File-Basename-0:2.86-512.f 100% | 651.9 KiB/s |  17.6 KiB |  00m00s
[37/81] perl-libs-4:5.40.0-512.fc42.ppc 100% |  38.8 MiB/s |   2.3 MiB |  00m00s
[38/81] perl-PathTools-0:3.91-511.fc42. 100% |   3.1 MiB/s |  83.1 KiB |  00m00s
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>>> Status code: 404 for http://mirrors.rit.edu/fedora/fedora-secondary/developm
--------------------------------------------------------------------------------
[81/81] Total                           100% |  31.3 MiB/s |  59.1 MiB |  00m02s
Running transaction
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Warning: skipped OpenPGP checks for 51 packages from repositories: copr_base, https_fedorapeople_org_dmalcolm_gcc_gcc_15_mass_prebuild_basearch
Complete!
Finish: build setup for samtools-1.15.1-5.fc42.src.rpm
Start: rpmbuild samtools-1.15.1-5.fc42.src.rpm
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1721433600
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.p0iXpv
+ umask 022
+ cd /builddir/build/BUILD/samtools-1.15.1-build
+ test -d /builddir/build/BUILD/samtools-1.15.1-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/samtools-1.15.1-build
+ /usr/bin/rm -rf /builddir/build/BUILD/samtools-1.15.1-build
+ /usr/bin/mkdir -p /builddir/build/BUILD/samtools-1.15.1-build
+ /usr/bin/mkdir -p /builddir/build/BUILD/samtools-1.15.1-build/SPECPARTS
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.UMJohe
+ umask 022
+ cd /builddir/build/BUILD/samtools-1.15.1-build
+ cd /builddir/build/BUILD/samtools-1.15.1-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.NKKAWy
+ umask 022
+ cd /builddir/build/BUILD/samtools-1.15.1-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd samtools-1.15.1
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']'
++ find . -type f -name configure -print
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ 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
+ 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	2024-12-23 21:45:20.367496463 +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
+ '[' 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
++ grep -q runstatedir=DIR ./configure
++ echo --runstatedir=/run
+ ./configure --build=ppc64le-redhat-linux --host=ppc64le-redhat-linux --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 --runstatedir=/run --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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' --prefix=/usr --with-htslib=system
checking for gawk... gawk
checking for ppc64le-redhat-linux-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 -j5 V=1 VERBOSE=1
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection"' >> version.h
echo '#define SAMTOOLS_LDFLAGS "-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes "' >> 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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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:683:14: note: in a call to allocation function ‘realloc’ declared here
  683 | extern void *realloc (void *__ptr, size_t __size)
      |              ^~~~~~~
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -I./lz4  -c -o bam_tview_curses.o bam_tview_curses.c
bam_tview_curses.c: In function ‘tv_win_help’:
bam_tview_curses.c:333:14: warning: ‘base’ is used uninitialized [-Wuninitialized]
  333 |     tview_t* base=(tview_t*)base;
      |              ^~~~
bam_tview_curses.c:333:14: note: ‘base’ was declared here
  333 |     tview_t* base=(tview_t*)base;
      |              ^~~~
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -I./lz4  -c -o test/split/test_parse_args.o test/split/test_parse_args.c
gcc -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o misc/maq2sam-long misc/maq2sam-long.o -lz 
gcc -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o misc/maq2sam-short misc/maq2sam-short.o -lz 
gcc  -L./lz4 -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o misc/md5fa misc/md5fa.o -lhts -lz 
gcc  -L./lz4 -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o misc/md5sum-lite misc/md5sum-lite.o -lhts -lz 
gcc  -L./lz4 -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o misc/ace2sam misc/ace2sam.o -lhts -lz 
gcc  -L./lz4 -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o misc/wgsim misc/wgsim.o -lm -lhts -lz 
gcc  -L./lz4 -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o test/vcf-miniview test/vcf-miniview.o -lhts -lz  -lpthread
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -I./lz4  -c -o test/merge/test_rtrans_build.o test/merge/test_rtrans_build.c
gcc  -L./lz4 -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o test/split/test_parse_args test/split/test_parse_args.o test/test.o libst.a -lhts -lz  -lpthread
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -I./lz4  -c -o test/merge/test_bam_translate.o test/merge/test_bam_translate.c
gcc  -L./lz4 -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o test/merge/test_rtrans_build test/merge/test_rtrans_build.o test/test.o libst.a -lhts -lz  -lpthread
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -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:683:14: note: in a call to allocation function ‘realloc’ declared here
  683 | extern void *realloc (void *__ptr, size_t __size)
      |              ^
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.RqNtqG
+ umask 022
+ cd /builddir/build/BUILD/samtools-1.15.1-build
+ '[' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT '!=' / ']'
+ rm -rf /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT
++ dirname /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT
+ mkdir -p /builddir/build/BUILD/samtools-1.15.1-build
+ mkdir /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd samtools-1.15.1
+ /usr/bin/make install DESTDIR=/builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT 'INSTALL=/usr/bin/install -p'
mkdir -p -m 755 /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/man/man1
/usr/bin/install -p samtools /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin
/usr/bin/install -p misc/ace2sam misc/maq2sam-long misc/maq2sam-short misc/md5fa misc/md5sum-lite misc/wgsim /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/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/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin
/usr/bin/install -p -m 644 doc/samtools*.1 misc/wgsim.1 /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/man/man1
++ grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/ace2sam /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/blast2sam.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/bowtie2sam.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/export2sam.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/fasta-sanitize.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/interpolate_sam.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/maq2sam-long /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/maq2sam-short /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/md5fa /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/md5sum-lite /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/novo2sam.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/plot-ampliconstats /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/plot-bamstats /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/psl2sam.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/sam2vcf.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/samtools /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/samtools.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/seq_cache_populate.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/soap2sam.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/wgsim /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/wgsim_eval.pl /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/zoom2sam.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/blast2sam.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/bowtie2sam.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/export2sam.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/fasta-sanitize.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/interpolate_sam.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/novo2sam.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/plot-ampliconstats
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/plot-bamstats
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/psl2sam.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/sam2vcf.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/samtools.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/seq_cache_populate.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/soap2sam.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/wgsim_eval.pl
+ for file in $(grep -l '^#!/usr/bin/env perl' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/*)
+ sed -i '1 s|/usr/bin/env perl|/usr/bin/perl|' /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/bin/zoom2sam.pl
+ /usr/bin/find-debuginfo -j5 --strict-build-id -m -i --build-id-seed 1.15.1-5.fc42 --unique-debug-suffix -1.15.1-5.fc42.ppc64le --unique-debug-src-base samtools-1.15.1-5.fc42.ppc64le --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1
find-debuginfo: starting
Extracting debug info from 7 files
DWARF-compressing 7 files
sepdebugcrcfix: Updated 7 CRC32s, 0 CRC32s did match.
Creating .debug symlinks for symlinks to ELF files
Copying sources found by 'debugedit -l' to /usr/src/debug/samtools-1.15.1-5.fc42.ppc64le
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
+ /usr/lib/rpm/brp-remove-la-files
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j5
+ /usr/lib/rpm/redhat/brp-python-hardlink
+ /usr/bin/add-determinism --brp -j5 /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT
Scanned 16 directories and 138 files,
               processed 0 inodes,
               0 modified (0 replaced + 0 rewritten),
               0 unsupported format, 0 errors
Reading /builddir/build/BUILD/samtools-1.15.1-build/SPECPARTS/rpm-debuginfo.specpart
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.5XIsNp
+ umask 022
+ cd /builddir/build/BUILD/samtools-1.15.1-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd samtools-1.15.1
+ ldd samtools
+ grep -E '/lib(64)?/libhts\.so\.'
	libhts.so.3 => /lib64/libhts.so.3 (0x00007fffb1130000)
+ 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/ALqnfsGRrd/bgzip.dat.gz
.. ok

bgzip -c -b 979200 -s 6 /tmp/ALqnfsGRrd/bgzip.dat.gz
.. ok

bgzip -c -b 652804 -s 6 /tmp/ALqnfsGRrd/bgzip.dat.gz
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools faidx /tmp/ALqnfsGRrd/faidx.fa 3:11-13 | grep -v '^>'
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools faidx /tmp/ALqnfsGRrd/faidx.fa.gz 3:11-13 | grep -v '^>'
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools faidx /tmp/ALqnfsGRrd/faidx.fa 2:998-1003 | grep -v '^>'
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools faidx /tmp/ALqnfsGRrd/faidx.fa.gz 2:998-1003 | grep -v '^>'
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools faidx /tmp/ALqnfsGRrd/faidx.fa 1:100-104 | grep -v '^>'
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools faidx /tmp/ALqnfsGRrd/faidx.fa.gz 1:100-104 | grep -v '^>'
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools faidx /tmp/ALqnfsGRrd/faidx.fa 1:99998-100007 | grep -v '^>'
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools faidx /tmp/ALqnfsGRrd/faidx.fa.gz 1:99998-100007 | grep -v '^>'
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fqidx /tmp/ALqnfsGRrd/fqidx.fq 3:11-13
.. ok

.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fqidx /tmp/ALqnfsGRrd/fqidx.fq.gz 3:11-13
.. ok

.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fqidx /tmp/ALqnfsGRrd/fqidx.fq 2:998-1003
.. ok

.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fqidx /tmp/ALqnfsGRrd/fqidx.fq.gz 2:998-1003
.. ok

.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fqidx /tmp/ALqnfsGRrd/fqidx.fq 1:100-104
.. ok

.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fqidx /tmp/ALqnfsGRrd/fqidx.fq.gz 1:100-104
.. ok

.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fqidx /tmp/ALqnfsGRrd/fqidx.fq 1:99998-100007
.. ok

.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fqidx /tmp/ALqnfsGRrd/fqidx.fq.gz 1:99998-100007
.. ok

.. ok

test_dict:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/dat/dict.fa
.. ok

test_dict:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz /tmp/ALqnfsGRrd/dict.fa.gz
.. ok

test_dict:
	cat /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/dict.fa | /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools dict -AH < /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/dict.alias.fa
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view /tmp/ALqnfsGRrd/large_chrom.bam ref2
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view /tmp/ALqnfsGRrd/large_chrom.bam ref2:1-541556283
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools index /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam && cat /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam.bai
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -X /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.bam /tmp/ALqnfsGRrd/test_input_1_b.bam.bai ref2
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -O sam - -X -cp -R ref2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam.bai /tmp/ALqnfsGRrd/test_input_1_b.bam.bai
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools index -c /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/auto_indexed.tmp.bam /tmp/ALqnfsGRrd/auto_indexed.csi && cat /tmp/ALqnfsGRrd/auto_indexed.csi
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools index /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/auto_indexed.tmp.cram /tmp/ALqnfsGRrd/auto_indexed.crai && cat /tmp/ALqnfsGRrd/auto_indexed.crai
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools index -c /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/auto_indexed.tmp.sam /tmp/ALqnfsGRrd/auto_indexed.csi && cat /tmp/ALqnfsGRrd/auto_indexed.csi
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -@ 2 /tmp/ALqnfsGRrd/large_chrom.bam ref2
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -@ 2 /tmp/ALqnfsGRrd/large_chrom.bam ref2:1-541556283
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools index -@ 2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam && cat /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam.bai
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -@ 2 -X /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.bam /tmp/ALqnfsGRrd/test_input_1_b.bam.bai ref2
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -O sam - -X -cp -R ref2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam.bai /tmp/ALqnfsGRrd/test_input_1_b.bam.bai
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools index -@ 2 -c /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/auto_indexed.tmp.bam /tmp/ALqnfsGRrd/auto_indexed.csi && cat /tmp/ALqnfsGRrd/auto_indexed.csi
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools index -@ 2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/auto_indexed.tmp.cram /tmp/ALqnfsGRrd/auto_indexed.crai && cat /tmp/ALqnfsGRrd/auto_indexed.crai
.. ok

test_index:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools index -@ 2 -c /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/auto_indexed.tmp.sam /tmp/ALqnfsGRrd/auto_indexed.csi && cat /tmp/ALqnfsGRrd/auto_indexed.csi
.. ok

test_mpileup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools mpileup -b /tmp/ALqnfsGRrd/mpileup.bam.list -f /tmp/ALqnfsGRrd/mpileup.ref.fa.gz -r17:100-150
.. ok

test_mpileup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools mpileup -b /tmp/ALqnfsGRrd/mpileup.cram.list -f /tmp/ALqnfsGRrd/mpileup.ref.fa.gz -r17:100-150
.. ok

test_mpileup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools mpileup -b /tmp/ALqnfsGRrd/mpileup.bam.urllist -f /tmp/ALqnfsGRrd/mpileup.ref.fa.gz -r17:100-150
.. ok

test_mpileup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools mpileup -b /tmp/ALqnfsGRrd/mpileup.cram.urllist -f /tmp/ALqnfsGRrd/mpileup.ref.fa.gz -r17:100-150
.. ok

test_mpileup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools mpileup -B --ff 0x14 -f /tmp/ALqnfsGRrd/mpileup.ref.fa.gz -r17:1050-1060 /tmp/ALqnfsGRrd/mpileup.1.bam | grep -v mpileup
.. ok

test_mpileup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools mpileup -B --ff 0x14 -f /tmp/ALqnfsGRrd/mpileup.ref.fa.gz -r17:1050-1060 /tmp/ALqnfsGRrd/mpileup.1.cram | grep -v mpileup
.. ok

test_mpileup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools mpileup /builddir/build/BUILD/samtools-1.15.1-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/ALqnfsGRrd/view.001.fogn (SAM input)     .. ok

	50: Count -R /tmp/ALqnfsGRrd/view.001.fogn (SAM input)      .. ok

	51: Filter -R /tmp/ALqnfsGRrd/view.001.fogn (BAM input)     .. ok

	52: Count -R /tmp/ALqnfsGRrd/view.001.fogn (BAM input)      .. ok

	53: Filter -R /tmp/ALqnfsGRrd/view.001.fogn (CRAM input)    .. ok

	54: Count -R /tmp/ALqnfsGRrd/view.001.fogn (CRAM input)     .. ok

	55: Filter -R /tmp/ALqnfsGRrd/view.001.fogn -r grp2 (SAM input).. ok

	56: Count -R /tmp/ALqnfsGRrd/view.001.fogn -r grp2 (SAM input).. ok

	57: Filter -R /tmp/ALqnfsGRrd/view.001.fogn -r grp2 (BAM input).. ok

	58: Count -R /tmp/ALqnfsGRrd/view.001.fogn -r grp2 (BAM input).. ok

	59: Filter -R /tmp/ALqnfsGRrd/view.001.fogn -r grp2 (CRAM input).. ok

	60: Count -R /tmp/ALqnfsGRrd/view.001.fogn -r grp2 (CRAM input).. ok

	61: Filter -r grp2 -R /tmp/ALqnfsGRrd/view.001.fogn (SAM input).. ok

	62: Count -r grp2 -R /tmp/ALqnfsGRrd/view.001.fogn (SAM input).. ok

	63: Filter -r grp2 -R /tmp/ALqnfsGRrd/view.001.fogn (BAM input).. ok

	64: Count -r grp2 -R /tmp/ALqnfsGRrd/view.001.fogn (BAM input).. ok

	65: Filter -r grp2 -R /tmp/ALqnfsGRrd/view.001.fogn (CRAM input).. ok

	66: Count -r grp2 -R /tmp/ALqnfsGRrd/view.001.fogn (CRAM input).. ok

	67: Filter -N /tmp/ALqnfsGRrd/view.001.forn (SAM input)     .. ok

	68: Count -N /tmp/ALqnfsGRrd/view.001.forn (SAM input)      .. ok

	69: Filter -N /tmp/ALqnfsGRrd/view.001.forn (BAM input)     .. ok

	70: Count -N /tmp/ALqnfsGRrd/view.001.forn (BAM input)      .. ok

	71: Filter -N /tmp/ALqnfsGRrd/view.001.forn (CRAM input)    .. ok

	72: Count -N /tmp/ALqnfsGRrd/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/ALqnfsGRrd/view.001.fobc (SAM input)  .. ok

	86: Count -D BC:/tmp/ALqnfsGRrd/view.001.fobc (SAM input)   .. ok

	87: Filter -D BC:/tmp/ALqnfsGRrd/view.001.fobc (BAM input)  .. ok

	88: Count -D BC:/tmp/ALqnfsGRrd/view.001.fobc (BAM input)   .. ok

	89: Filter -D BC:/tmp/ALqnfsGRrd/view.001.fobc (CRAM input) .. ok

	90: Count -D BC:/tmp/ALqnfsGRrd/view.001.fobc (CRAM input)  .. ok

	91: Filter -D BC:/tmp/ALqnfsGRrd/view.001.fobc -d BC:TGCA (SAM input).. ok

	92: Count -D BC:/tmp/ALqnfsGRrd/view.001.fobc -d BC:TGCA (SAM input).. ok

	93: Filter -D BC:/tmp/ALqnfsGRrd/view.001.fobc -d BC:TGCA (BAM input).. ok

	94: Count -D BC:/tmp/ALqnfsGRrd/view.001.fobc -d BC:TGCA (BAM input).. ok

	95: Filter -D BC:/tmp/ALqnfsGRrd/view.001.fobc -d BC:TGCA (CRAM input).. ok

	96: Count -D BC:/tmp/ALqnfsGRrd/view.001.fobc -d BC:TGCA (CRAM input).. ok

	97: Filter -d BC:TGCA -D BC:/tmp/ALqnfsGRrd/view.001.fobc (SAM input).. ok

	98: Count -d BC:TGCA -D BC:/tmp/ALqnfsGRrd/view.001.fobc (SAM input).. ok

	99: Filter -d BC:TGCA -D BC:/tmp/ALqnfsGRrd/view.001.fobc (BAM input).. ok

	100: Count -d BC:TGCA -D BC:/tmp/ALqnfsGRrd/view.001.fobc (BAM input).. ok

	101: Filter -d BC:TGCA -D BC:/tmp/ALqnfsGRrd/view.001.fobc (CRAM input).. ok

	102: Count -d BC:TGCA -D BC:/tmp/ALqnfsGRrd/view.001.fobc (CRAM input).. ok

	103: Filter -D RG:/tmp/ALqnfsGRrd/view.001.fogn (SAM input) .. ok

	104: Count -D RG:/tmp/ALqnfsGRrd/view.001.fogn (SAM input)  .. ok

	105: Filter -D RG:/tmp/ALqnfsGRrd/view.001.fogn (BAM input) .. ok

	106: Count -D RG:/tmp/ALqnfsGRrd/view.001.fogn (BAM input)  .. ok

	107: Filter -D RG:/tmp/ALqnfsGRrd/view.001.fogn (CRAM input).. ok

	108: Count -D RG:/tmp/ALqnfsGRrd/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-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test115.sam -h -d TGCA /tmp/ALqnfsGRrd/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-build/samtools-1.15.1/samtools view -c -d TGCA /tmp/ALqnfsGRrd/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-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test117.sam -h -d TGCA /tmp/ALqnfsGRrd/view.test001.bam --no-PG


.. expected failure

	118: Count -d TGCA (BAM input)                              	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -c -d TGCA /tmp/ALqnfsGRrd/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-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test119.sam -h -d TGCA /tmp/ALqnfsGRrd/view.test006.cram --no-PG


.. expected failure

	120: Count -d TGCA (CRAM input)                             samtools view: Invalid "tag:value" option: "TGCA"
samtools view: Invalid "tag:value" option: "TGCA"
	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -c -d TGCA /tmp/ALqnfsGRrd/view.test006.cram --no-PG


.. expected failure

	121: Filter -D BClong:/tmp/ALqnfsGRrd/view.001.fobc (SAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/ALqnfsGRrd/view.001.fobc"
	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test121.sam -h -D BClong:/tmp/ALqnfsGRrd/view.001.fobc /tmp/ALqnfsGRrd/view.001.sam --no-PG


.. expected failure

	122: Count -D BClong:/tmp/ALqnfsGRrd/view.001.fobc (SAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/ALqnfsGRrd/view.001.fobc"
	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -c -D BClong:/tmp/ALqnfsGRrd/view.001.fobc /tmp/ALqnfsGRrd/view.001.sam --no-PG


.. expected failure

	123: Filter -D BClong:/tmp/ALqnfsGRrd/view.001.fobc (BAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/ALqnfsGRrd/view.001.fobc"
	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test123.sam -h -D BClong:/tmp/ALqnfsGRrd/view.001.fobc /tmp/ALqnfsGRrd/view.test001.bam --no-PG


.. expected failure

	124: Count -D BClong:/tmp/ALqnfsGRrd/view.001.fobc (BAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/ALqnfsGRrd/view.001.fobc"
	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -c -D BClong:/tmp/ALqnfsGRrd/view.001.fobc /tmp/ALqnfsGRrd/view.test001.bam --no-PG


.. expected failure

	125: Filter -D BClong:/tmp/ALqnfsGRrd/view.001.fobc (CRAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/ALqnfsGRrd/view.001.fobc"
	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test125.sam -h -D BClong:/tmp/ALqnfsGRrd/view.001.fobc /tmp/ALqnfsGRrd/view.test006.cram --no-PG


.. expected failure

	126: Count -D BClong:/tmp/ALqnfsGRrd/view.001.fobc (CRAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/ALqnfsGRrd/view.001.fobc"
	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -c -D BClong:/tmp/ALqnfsGRrd/view.001.fobc /tmp/ALqnfsGRrd/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-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test127.sam -h -d BC:ACGT -d RG:grp2 /tmp/ALqnfsGRrd/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-build/samtools-1.15.1/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/ALqnfsGRrd/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-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test129.sam -h -d BC:ACGT -d RG:grp2 /tmp/ALqnfsGRrd/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-build/samtools-1.15.1/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/ALqnfsGRrd/view.test001.bam --no-PG


.. expected failure

	131: Filter -d BC:ACGT -d RG:grp2 (CRAM input)              	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -o /tmp/ALqnfsGRrd/view.test131.sam -h -d BC:ACGT -d RG:grp2 /tmp/ALqnfsGRrd/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"
samtools view: Different tag "BC" was specified before: "RG:grp2"
	Failed command:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/ALqnfsGRrd/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-build/samtools-1.15.1/test/dat/view.002.01.bed  (BAM input).. ok

	335: Count -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.002.01.bed  (BAM input).. ok

	336: Region -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.002.01.bed  (CRAM input).. ok

	337: Count -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.002.01.bed  (CRAM input).. ok

	338: Region -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.002.02.bed  (BAM input).. ok

	339: Count -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.002.02.bed  (BAM input).. ok

	340: Region -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.002.02.bed  (CRAM input).. ok

	341: Count -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.002.02.bed  (CRAM input).. ok

	342: Region -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.01.bed  (BAM input).. ok

	343: Count -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.01.bed  (BAM input).. ok

	344: Region -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.01.bed  (CRAM input).. ok

	345: Count -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.01.bed  (CRAM input).. ok

	346: Region -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.02.bed  (BAM input).. ok

	347: Count -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.02.bed  (BAM input).. ok

	348: Region -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.02.bed  (CRAM input).. ok

	349: Count -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.02.bed  (CRAM input).. ok

	350: Region -L /builddir/build/BUILD/samtools-1.15.1-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-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-build/samtools-1.15.1/samtools head /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -h 0 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -h 1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -h 5 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -h 29 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -h 30 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -n 0 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -n 1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -n 5 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.sam
.. ok

test_head:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools head -h 5 -n 5 < /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools import -0 test/bam2fq/1.1.fq.expected  | /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -0 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/0.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools import -s test/bam2fq/1.1.fq.expected  | /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -0 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/0.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools import -s test/bam2fq/5.s.fq.expected  | /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fastq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fastq -N -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fastq -i --index-format 'i*i*' -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fastq --barcode-tag OX -i --index-format 'i*i*' -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fastq -N -T RG,BC,QT -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fastq -N -T RG,BC,QT,MD,ia -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-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-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-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-build/samtools-1.15.1/samtools import test/import/2.interleaved.fq -T ""
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools import test/import/3.interleaved.fq -i
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools import test/import/4.aux.fq -T "*"
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools import test/import/4.aux.fq -T ""
.. ok

test_import:
	/builddir/build/BUILD/samtools-1.15.1-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-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-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-build/samtools-1.15.1/samtools fastq  -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.002.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.003.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  --barcode-tag BC --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.004.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  --barcode-tag BC -O --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.004.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  --barcode-tag BC -O --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.010.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  --barcode-tag BC -N --index-format 'n*i*' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bc_split.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -N -t -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -N -t -T MD,ia -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  --barcode-tag BC -i --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/i.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.004.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  --barcode-tag BC -i --index-format 'i*i*' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/i.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -i --index-format 'i*i*' -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.703.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -N -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fasta  -N -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fa -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fa /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -N -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -N -s /tmp/ALqnfsGRrd/bam2fq.discard.s.fq -0 /tmp/ALqnfsGRrd/bam2fq.discard.0.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  -T ba,bb,bc,bd,be,bf,bg /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.013.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq  --index-format 'i8n1i8' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/i1.fq --i2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/i2.fq -0 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/0.fq /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fastq -@ 2 -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.002.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.003.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.004.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -O --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.004.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -O --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bc.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.010.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -N --index-format 'n*i*' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bc_split.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -N -t -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -N -t -T MD,ia -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -i --index-format 'n2i2' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/i.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.004.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 --barcode-tag BC -i --index-format 'i*i*' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/i.fq -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -i --index-format 'i*i*' -s /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/s.fq -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.005.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/1.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/2.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.703.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -N -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fq -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fasta -@ 2 -N -1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fa -2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fa /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -N -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/o.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -N -s /tmp/ALqnfsGRrd/bam2fq.discard.s.fq -0 /tmp/ALqnfsGRrd/bam2fq.discard.0.fq /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.001.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 -T ba,bb,bc,bd,be,bf,bg /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/bam2fq.013.sam
.. ok

test_bam2fq:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fastq -@ 2 --index-format 'i8n1i8' --i1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/i1.fq --i2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/i2.fq -0 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/0.fq /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/1_map_cigar.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/5_insert_cigar.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa -i 0 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/5_insert_cigar.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/7_supp.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/7_supp_large.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/8_secondary.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/8_secondary_large.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -S RG -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/1_map_cigar.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -S RG -r /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/test.fa /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/10_map_cigar.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -t /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/11.stats.targets /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/11_target.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats -g 4 -t /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/11.stats.targets /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/11_target.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -g 4 /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/12_overlaps.bam -t /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/12_3reads.bed | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/12_overlaps.bam -p -t /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/12_3reads.bed | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/12_overlaps.bam -t /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/12_2reads.bed | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/12_overlaps.bam -p -t /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/12_2reads.bed | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/13_barcodes_ok.sam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/13_barcodes_fail_bc_length.sam | tail -n+4

	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/13_barcodes_fail_hyphen.sam | tail -n+4

	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/13_barcodes_fail_qt_length.sam | tail -n+4

	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools stats -I s1 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/11_target.bam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -I grp2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/11_target.bam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -I grp3 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/11_target.bam | tail -n+4
.. ok

test_stats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools stats -I Sample /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/stat/11_target.bam | tail -n+4
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_c.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_c.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -s 1 -O sam -b /tmp/IY_swVmn18 - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -r -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_c.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -cp -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a_regex.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b_regex.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -o - -s 1 -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_c.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -s 1 -p -c -t PG -O SAM - /tmp/ALqnfsGRrd/merge.tag.1.bam /tmp/ALqnfsGRrd/merge.tag.2.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -s 1 -p -c -n -t PG -O SAM - /tmp/ALqnfsGRrd/merge.tag.3.bam /tmp/ALqnfsGRrd/merge.tag.4.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge --no-PG -O SAM - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/merge/test_no_pg_rg_co.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge --no-PG -O SAM -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/merge/merge.bed - /tmp/ALqnfsGRrd/merge.bed.1.bam /tmp/ALqnfsGRrd/merge.bed.2.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_c.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_c.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam -b /tmp/LSY3lKhp9O - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -r -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_c.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -cp -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -s 1 -O sam - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a_regex.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b_regex.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -o - -s 1 -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_b.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_c.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -s 1 -p -c -t PG -O SAM - /tmp/ALqnfsGRrd/merge.tag.1.bam /tmp/ALqnfsGRrd/merge.tag.2.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 -s 1 -p -c -n -t PG -O SAM - /tmp/ALqnfsGRrd/merge.tag.3.bam /tmp/ALqnfsGRrd/merge.tag.4.bam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 --no-PG -O SAM - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/merge/test_no_pg_rg_co.sam
.. ok

test_merge:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -@ 2 --no-PG -O SAM -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/merge/merge.bed - /tmp/ALqnfsGRrd/merge.bed.1.bam /tmp/ALqnfsGRrd/merge.bed.2.bam
.. ok

test_sort:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/ALqnfsGRrd/sortout
.. ok

test_sort:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort -f /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/ALqnfsGRrd/sortout.bam
.. ok

test_sort:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/ALqnfsGRrd/sorttmp
.. ok

test_sort:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -n -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -t RG -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -n -t RG -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -t AS -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -t FI -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -@ 2 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/ALqnfsGRrd/sortout
.. ok

test_sort:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort -@ 2 -f /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/ALqnfsGRrd/sortout.bam
.. ok

test_sort:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort -@ 2 -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam /tmp/ALqnfsGRrd/sorttmp
.. ok

test_sort:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort -@ 2 -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -@ 2 -n -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -@ 2 -t RG -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -@ 2 -n -t RG -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -@ 2 -t AS -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools sort -@ 2 -t FI -m 10M /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools collate --output-fmt=sam -O /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_d.sam
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/collate1.tmp.sam  /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_d.sam
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/collate2.tmp.sam  /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_d.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/collate2.tmp
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate --output-fmt=sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_d.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/collate3.tmp
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate --output-fmt=sam -f /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/fast_collate.sam -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/1_fast_collate.sam
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate --output-fmt=sam -f -r 4 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/fast_collate.sam -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/2_fast_collate_with_tmp.sam
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate -@ 2 --output-fmt=sam -O /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_d.sam
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate -@ 2 -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/collate1.tmp.sam  /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_d.sam
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate -@ 2 -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/collate2.tmp.sam  /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_d.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/collate2.tmp
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate -@ 2 --output-fmt=sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_d.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/collate3.tmp
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate -@ 2 --output-fmt=sam -f /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/fast_collate.sam -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/1_fast_collate.sam
.. ok

test_collate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools collate -@ 2 --output-fmt=sam -f -r 4 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/fast_collate.sam -o /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/collate/2_fast_collate_with_tmp.sam
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/2_isize_overflow.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/3_reverse_read_pp_lt.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/4_reverse_read_pp_equal.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -cO sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/5_ct.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -cO sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/6_ct_replace.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/7_two_read_mapped.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/8_isize_overflow_64bit.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/2_isize_overflow.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/3_reverse_read_pp_lt.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/4_reverse_read_pp_equal.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -@ 2 -cO sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/5_ct.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -@ 2 -cO sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/6_ct_replace.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/7_two_read_mapped.sam -
.. ok

test_fixmate:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools fixmate -@ 2 -O sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/fixmate/8_isize_overflow_64bit.sam -
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools calmd -uAr /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/mpileup.1.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/mpileup.ref.fa
.. ok

/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools calmd -@ 2 -uAr /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/mpileup.1.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/mpileup.ref.fa
.. ok

test_idxstat:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools idxstats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.bam
.. ok

test_idxstat:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools idxstats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.cram
.. ok

test_idxstat:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools idxstats /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/test_input_1_a.sam
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/1.quickcheck.badeof.bam
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/2.quickcheck.badheader.bam
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/3.quickcheck.ok.bam
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/4.quickcheck.ok.bam
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/5.quickcheck.scramble30.truncated.cram
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/6.quickcheck.cram21.ok.cram
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/7.quickcheck.cram30.ok.cram
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/8.quickcheck.cram21.truncated.cram
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/9.quickcheck.cram30.truncated.cram
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/10.quickcheck.notargets.bam
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck -v  /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/1.quickcheck.badeof.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/2.quickcheck.badheader.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/3.quickcheck.ok.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/4.quickcheck.ok.bam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/5.quickcheck.scramble30.truncated.cram /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/6.quickcheck.cram21.ok.cram /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/7.quickcheck.cram30.ok.cram /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/8.quickcheck.cram21.truncated.cram /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/9.quickcheck.cram30.truncated.cram /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/10.quickcheck.notargets.bam | sed 's,.*/quickcheck/,,'
.. ok

test_quickcheck:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools quickcheck -uv /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/quickcheck/10.quickcheck.notargets.bam | sed 's,.*/quickcheck/,,'
.. ok

test_reheader:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools reheader /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.tmp.bam | /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/	VN:.*//'
.. ok

test_reheader:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools reheader /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.tmp.v21.cram | /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/	VN:.*//'
.. ok

test_reheader:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools reheader /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.tmp.v30.cram | /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/	VN:.*//'
.. ok

test_reheader:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools reheader --in-place /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.tmp.v21.cram && /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools reheader --in-place /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/reheader/hdr.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.tmp.v30.cram && /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools reheader -c "sed 's/2014 Genome/2019 Genome/g'" /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.tmp.bam | /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/	VN:.*//'
.. ok

test_reheader:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools reheader -c "sed 's/2014 Genome/2019 Genome/g'" /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/dat/view.001.tmp.v30.cram | /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG | perl -pe 's/	VN:.*//'
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -O sam -m overwrite_all /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/1_fixup.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -O sam -m orphan_only /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/2_fixup_orphan.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -O sam -R '1#9' /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/1_fixup.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -O sam -r '@RG\tID:1#8\tCN:SC' /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/4_fixup_norg.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -O sam -m overwrite_all -R '1#8' /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/1_fixup.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -O sam -r 'ID:1#8' -r 'CN:SC' /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/4_fixup_norg.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/addrprg/1_fixup.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -m overwrite_all /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/1_fixup.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -m orphan_only /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/2_fixup_orphan.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -R '1#9' /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/1_fixup.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -r '@RG\tID:1#8\tCN:SC' /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/4_fixup_norg.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -m overwrite_all -R '1#8' /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/1_fixup.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools addreplacerg -@ 2 -O sam -r 'ID:1#8' -r 'CN:SC' /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/addrprg/4_fixup_norg.sam
.. ok

test_addrprg:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/addrprg/1_fixup.sam
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools markdup -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/markdup/5_markdup.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools markdup -O sam -r --no-PG /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/markdup/6_remove_dups.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools markdup -S -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/markdup/7_mark_supp_dup.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools markdup -S -d 100 --mode s -t -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/markdup/8_optical_dup.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/9_optical_dup_qcfail.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/10_optical_chain.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/10_optical_chain.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/11_optical_dup_regex.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/11_optical_dup_regex.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/12_optical_chain_regex.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools markdup -@ 2 -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/markdup/5_markdup.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools markdup -@ 2 -O sam -r --no-PG /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/markdup/6_remove_dups.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools markdup -@ 2 -S -O sam --no-PG /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/markdup/7_mark_supp_dup.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/8_optical_dup.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/9_optical_dup_qcfail.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/10_optical_chain.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/10_optical_chain.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/11_optical_dup_regex.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/11_optical_dup_regex.sam -
.. ok

test_markdup:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/markdup/12_optical_chain_regex.sam -
.. ok

test_bedcov:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools bedcov /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bedcov/bedcov.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bedcov/bedcov.bam
.. ok

test_bedcov:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools bedcov -j /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bedcov/bedcov.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bedcov/bedcov.bam
.. ok

test_bedcov:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools bedcov -g512 -G2048 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bedcov/bedcov_gG.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/bedcov/bedcov.bam
.. ok

test_split:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools split  --output-fmt sam -u /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/split/split.tmp.unk.sam -f /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/split/split.tmp.%!.%. /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/split/split.sam
.. ok

test_split:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools split  -@ 2 --output-fmt sam -u /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/split/split.tmp.unk.sam -f /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/split/split.tmp.%!.%. /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/split/split.sam
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG /tmp/ALqnfsGRrd/longref.sam.gz
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG /tmp/ALqnfsGRrd/longref.sam.gz CHROMOSOME_I:10000000114-10000000168
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools view -h --no-PG -L /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/large_pos/test.bed /tmp/ALqnfsGRrd/longref.sam.gz
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort -O sam --no-PG -m 10M /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/large_pos/longref_name.sam
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools merge -O sam --no-PG - /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/large_pos/longref.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/large_pos/longref2.sam
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools depth /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/large_pos/longref.sam
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools depth -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/large_pos/test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/large_pos/longref.sam
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools tview -d T -p CHROMOSOME_I:10000000000 /tmp/ALqnfsGRrd/longref.sam.gz
.. ok

test_large_positions:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools fixmate -O sam --no-PG - - |
                     /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools sort    -O sam --no-PG -m 10M
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --hard-clip -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip --no-PG  --keep-tag --output-fmt=sam --original -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip --no-PG --output-fmt=sam -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/2_both_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG  --keep-tag --output-fmt=sam --original -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconclip -@ 2 --no-PG --output-fmt=sam -b /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_test_data.sam
.. ok

test_ampliconclip:
	/builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/2_both_test_data.sam
.. ok

test_ampliconstats:
	/builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/samtools ampliconstats -@ 2 -S -t 50 -d 1,20,100 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/ac_test.bed /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_hard_clipped.expected.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_soft_clipped.expected.sam /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/1_soft_clipped_strand.expected.sam /builddir/build/BUILD/samtools-1.15.1-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-build/samtools-1.15.1/samtools ampliconstats -@ 2 -c 0 /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/test/ampliconclip/multi_ref.bed /builddir/build/BUILD/samtools-1.15.1-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-1.15.1-5.fc42.ppc64le
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.BkcwJt
+ umask 022
+ cd /builddir/build/BUILD/samtools-1.15.1-build
+ cd samtools-1.15.1
+ DOCDIR=/builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/doc/samtools
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/doc/samtools
+ cp -pr /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/AUTHORS /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/doc/samtools
+ cp -pr /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/ChangeLog.old /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/doc/samtools
+ cp -pr /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/NEWS /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/doc/samtools
+ cp -pr /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/examples /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/doc/samtools
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.i4bXNN
+ umask 022
+ cd /builddir/build/BUILD/samtools-1.15.1-build
+ cd samtools-1.15.1
+ LICENSEDIR=/builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/licenses/samtools
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/licenses/samtools
+ cp -pr /builddir/build/BUILD/samtools-1.15.1-build/samtools-1.15.1/LICENSE /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT/usr/share/licenses/samtools
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: samtools = 1.15.1-5.fc42 samtools(ppc-64) = 1.15.1-5.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/perl ld64.so.2()(64bit) ld64.so.2(GLIBC_2.23)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(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-1.15.1-5.fc42.ppc64le
Provides: samtools-debugsource = 1.15.1-5.fc42 samtools-debugsource(ppc-64) = 1.15.1-5.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: samtools-debuginfo-1.15.1-5.fc42.ppc64le
Provides: debuginfo(build-id) = 4b0878a15ba11e375ac428fc9168d3fda14b1364 debuginfo(build-id) = 50efc29986f5ad92b2e347c5892a6f41854f2619 debuginfo(build-id) = 73e75054eb7110f001769ae6f15caace8f775001 debuginfo(build-id) = 82817e5251c61cd6709f779fd02ad4b402610d88 debuginfo(build-id) = 9261eb6ca072599161625035e216db0464acc4c6 debuginfo(build-id) = a382054d6901da52314504d337611b90d50fbf91 debuginfo(build-id) = aa6f755088ffe07a40a62266f57fdb97c1325163 samtools-debuginfo = 1.15.1-5.fc42 samtools-debuginfo(ppc-64) = 1.15.1-5.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: samtools-debugsource(ppc-64) = 1.15.1-5.fc42
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/samtools-1.15.1-build/BUILDROOT
Wrote: /builddir/build/RPMS/samtools-1.15.1-5.fc42.ppc64le.rpm
Wrote: /builddir/build/RPMS/samtools-debugsource-1.15.1-5.fc42.ppc64le.rpm
Wrote: /builddir/build/RPMS/samtools-debuginfo-1.15.1-5.fc42.ppc64le.rpm
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.s2fBks
+ umask 022
+ cd /builddir/build/BUILD/samtools-1.15.1-build
+ test -d /builddir/build/BUILD/samtools-1.15.1-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/samtools-1.15.1-build
+ rm -rf /builddir/build/BUILD/samtools-1.15.1-build
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild samtools-1.15.1-5.fc42.src.rpm
Finish: build phase for samtools-1.15.1-5.fc42.src.rpm
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-ppc64le-1734990264.748555/root/var/log/dnf5.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
INFO: Done(/var/lib/copr-rpmbuild/results/samtools-1.15.1-5.fc42.src.rpm) Config(child) 1 minutes 6 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
Finish: run
Running RPMResults tool
Package info:
{
    "packages": [
        {
            "name": "samtools-debugsource",
            "epoch": null,
            "version": "1.15.1",
            "release": "5.fc42",
            "arch": "ppc64le"
        },
        {
            "name": "samtools-debuginfo",
            "epoch": null,
            "version": "1.15.1",
            "release": "5.fc42",
            "arch": "ppc64le"
        },
        {
            "name": "samtools",
            "epoch": null,
            "version": "1.15.1",
            "release": "5.fc42",
            "arch": "src"
        },
        {
            "name": "samtools",
            "epoch": null,
            "version": "1.15.1",
            "release": "5.fc42",
            "arch": "ppc64le"
        }
    ]
}
RPMResults finished