Warning: Permanently added '150.240.0.53' (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/8070090-fedora-rawhide-s390x --chroot fedora-rawhide-s390x


Version: 0.73
PID: 6928
Logging PID: 6929
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': False,
 'build_id': 8070090,
 'buildroot_pkgs': [],
 'chroot': 'fedora-rawhide-s390x',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': 'ae575d2f7fce34f3c04fd9b78c499ae093704e05',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/ljavorsk/zlib-ng-rebase-fedora/htslib',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'htslib',
 'package_version': '1.15.1-7',
 'project_dirname': 'zlib-ng-rebase-fedora',
 'project_name': 'zlib-ng-rebase-fedora',
 'project_owner': 'ljavorsk',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/ljavorsk/zlib-ng-rebase-fedora/fedora-rawhide-s390x/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None}],
 'sandbox': 'ljavorsk/zlib-ng-rebase-fedora--ljavorsk',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'submitter': 'ljavorsk',
 'tags': [],
 'task_id': '8070090-fedora-rawhide-s390x',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/ljavorsk/zlib-ng-rebase-fedora/htslib /var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/ljavorsk/zlib-ng-rebase-fedora/htslib', '/var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib'...

Running: git checkout ae575d2f7fce34f3c04fd9b78c499ae093704e05 --

cmd: ['git', 'checkout', 'ae575d2f7fce34f3c04fd9b78c499ae093704e05', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib
rc: 0
stdout: 
stderr: Note: switching to 'ae575d2f7fce34f3c04fd9b78c499ae093704e05'.

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 ae575d2 automatic import of htslib

Running: copr-distgit-client sources

cmd: ['copr-distgit-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib
rc: 0
stdout: 
stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD
INFO: Reading stdout from command: git rev-parse HEAD
INFO: Reading sources specification file: sources
INFO: Downloading htslib-1.15.1.tar.bz2
INFO: Reading stdout from command: curl --help all
INFO: Calling: curl -H Pragma: -o htslib-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/ljavorsk/zlib-ng-rebase-fedora/htslib/htslib-1.15.1.tar.bz2/md5/9ea5cff8edcebb01f31dd02bd4d2a082/htslib-1.15.1.tar.bz2
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 4044k  100 4044k    0     0  22.3M      0 --:--:-- --:--:-- --:--:-- 22.4M
/usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated
Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib/htslib.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1727385887.696194 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 5.6 starting (python version = 3.12.1, NVR = mock-5.6-1.fc39), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib/htslib.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1727385887.696194 -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-p3ydkaji/htslib/htslib.spec)  Config(fedora-rawhide-s390x)
Start: clean chroot
Finish: clean chroot
Mock Version: 5.6
INFO: Mock Version: 5.6
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-s390x-bootstrap-1727385887.696194/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
INFO: Guessed host environment type: unknown
INFO: Using bootstrap image: registry.fedoraproject.org/fedora:rawhide
INFO: Pulling image: registry.fedoraproject.org/fedora:rawhide
INFO: Copy content of container registry.fedoraproject.org/fedora:rawhide to /var/lib/mock/fedora-rawhide-s390x-bootstrap-1727385887.696194/root
INFO: Checking that registry.fedoraproject.org/fedora:rawhide image matches host's architecture
INFO: mounting registry.fedoraproject.org/fedora:rawhide with podman image mount
INFO: image registry.fedoraproject.org/fedora:rawhide as /var/lib/containers/storage/overlay/53bf1159c014c90e717bff4a335ba03dce3a37b163ec5319863ddfcbf63f4d9a/merged
INFO: umounting image registry.fedoraproject.org/fedora:rawhide (/var/lib/containers/storage/overlay/53bf1159c014c90e717bff4a335ba03dce3a37b163ec5319863ddfcbf63f4d9a/merged) with podman image umount
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-s390x-1727385887.696194/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-4.19.94-1.fc42.s390x
  rpm-sequoia-1.7.0-2.fc41.s390x
  dnf5-5.2.6.2-1.fc42.s390x
  dnf5-plugins-5.2.6.2-1.fc42.s390x
Start: installing minimal buildroot with dnf5
Updating and loading repositories:
 fedora                                 100% |   2.9 MiB/s |  19.8 MiB |  00m07s
 Copr repository                        100% | 277.8 KiB/s |   1.4 MiB |  00m05s
Repositories loaded.
Package                            Arch   Version                    Repository      Size
Installing group/module packages:
 bash                              s390x  5.2.32-2.fc42              fedora       8.3 MiB
 bzip2                             s390x  1.0.8-19.fc41              fedora      99.2 KiB
 coreutils                         s390x  9.5-9.fc42                 fedora       6.2 MiB
 cpio                              s390x  2.15-2.fc41                fedora       1.1 MiB
 diffutils                         s390x  3.10-8.fc41                fedora       1.6 MiB
 fedora-release-common             noarch 42-0.3                     fedora      19.4 KiB
 findutils                         s390x  1:4.10.0-4.fc41            fedora       1.9 MiB
 gawk                              s390x  5.3.0-4.fc41               fedora       1.8 MiB
 glibc-minimal-langpack            s390x  2.40.9000-5.fc42           copr_base    0.0   B
 grep                              s390x  3.11-9.fc41                fedora       1.0 MiB
 gzip                              s390x  1.13-2.fc41                fedora     400.8 KiB
 info                              s390x  7.1.1-1.fc42               fedora     409.1 KiB
 patch                             s390x  2.7.6-25.fc41              fedora     298.3 KiB
 redhat-rpm-config                 noarch 296-1.fc42                 fedora     186.6 KiB
 rpm-build                         s390x  4.19.94-1.fc42             fedora     200.5 KiB
 sed                               s390x  4.9-3.fc41                 fedora     873.2 KiB
 shadow-utils                      s390x  2:4.16.0-4.fc42            fedora       4.1 MiB
 tar                               s390x  2:1.35-4.fc41              fedora       3.0 MiB
 unzip                             s390x  6.0-64.fc41                fedora     410.0 KiB
 util-linux                        s390x  2.40.2-8.fc42              fedora       3.7 MiB
 which                             s390x  2.21-42.fc41               fedora      83.9 KiB
 xz                                s390x  1:5.6.2-2.fc41             fedora       1.2 MiB
Installing dependencies:
 add-determinism                   s390x  0.3.6-1.fc41               fedora       3.0 MiB
 alternatives                      s390x  1.30-1.fc41                fedora      70.1 KiB
 ansible-srpm-macros               noarch 1-16.fc41                  fedora      35.7 KiB
 audit-libs                        s390x  4.0.2-1.fc41               fedora     350.9 KiB
 authselect                        s390x  1.5.0-7.fc41               fedora     153.3 KiB
 authselect-libs                   s390x  1.5.0-7.fc41               fedora     819.6 KiB
 basesystem                        noarch 11-21.fc41                 fedora       0.0   B
 binutils                          s390x  2.43.50-1.fc42             copr_base   26.9 MiB
 build-reproducibility-srpm-macros noarch 0.3.6-1.fc41               fedora     735.0   B
 bzip2-libs                        s390x  1.0.8-19.fc41              fedora      88.5 KiB
 ca-certificates                   noarch 2024.2.69_v8.0.401-1.fc42  fedora       2.6 MiB
 coreutils-common                  s390x  9.5-9.fc42                 fedora      11.2 MiB
 cracklib                          s390x  2.9.11-6.fc42              copr_base  230.0 KiB
 crypto-policies                   noarch 20240828-1.git5f66e81.fc42 fedora     136.9 KiB
 curl                              s390x  8.10.1-2.fc42              copr_base  481.1 KiB
 cyrus-sasl-lib                    s390x  2.1.28-27.fc41             fedora       2.4 MiB
 debugedit                         s390x  5.0-17.fc41                fedora     202.8 KiB
 dwz                               s390x  0.15-7.fc41                fedora     318.6 KiB
 ed                                s390x  1.20.2-2.fc41              fedora     150.6 KiB
 efi-srpm-macros                   noarch 5-12.fc41                  fedora      40.1 KiB
 elfutils                          s390x  0.191-8.fc42               copr_base    2.9 MiB
 elfutils-debuginfod-client        s390x  0.191-8.fc42               copr_base   56.4 KiB
 elfutils-default-yama-scope       noarch 0.191-8.fc42               copr_base    1.8 KiB
 elfutils-libelf                   s390x  0.191-8.fc42               copr_base    1.2 MiB
 elfutils-libs                     s390x  0.191-8.fc42               copr_base  738.0 KiB
 fedora-gpg-keys                   noarch 42-0.2                     fedora     126.4 KiB
 fedora-release                    noarch 42-0.3                     fedora       0.0   B
 fedora-release-identity-basic     noarch 42-0.3                     fedora     694.0   B
 fedora-repos                      noarch 42-0.2                     fedora       4.9 KiB
 fedora-repos-rawhide              noarch 42-0.2                     fedora       2.2 KiB
 file                              s390x  5.45-7.fc42                copr_base   99.2 KiB
 file-libs                         s390x  5.45-7.fc42                copr_base    9.9 MiB
 filesystem                        s390x  3.18-29.fc42               fedora     106.0   B
 fonts-srpm-macros                 noarch 1:2.0.5-17.fc41            fedora      55.8 KiB
 forge-srpm-macros                 noarch 0.3.2-1.fc41               fedora      39.0 KiB
 fpc-srpm-macros                   noarch 1.3-13.fc41                fedora     144.0   B
 gdb-minimal                       s390x  15.1-2.fc42                copr_base   15.0 MiB
 gdbm                              s390x  1:1.23-7.fc41              fedora     483.9 KiB
 gdbm-libs                         s390x  1:1.23-7.fc41              fedora     133.4 KiB
 ghc-srpm-macros                   noarch 1.9.2-1.fc42               fedora     779.0   B
 glibc                             s390x  2.40.9000-5.fc42           copr_base    5.1 MiB
 glibc-common                      s390x  2.40.9000-5.fc42           copr_base    1.1 MiB
 glibc-gconv-extra                 s390x  2.40.9000-5.fc42           copr_base    6.8 MiB
 gmp                               s390x  1:6.3.0-2.fc41             fedora     770.0 KiB
 gnat-srpm-macros                  noarch 6-6.fc41                   fedora       1.0 KiB
 go-srpm-macros                    noarch 3.6.0-3.fc41               fedora      60.8 KiB
 jansson                           s390x  2.13.1-10.fc41             fedora      92.1 KiB
 kernel-srpm-macros                noarch 1.0-24.fc41                fedora       1.9 KiB
 keyutils-libs                     s390x  1.6.3-4.fc41               fedora      54.2 KiB
 krb5-libs                         s390x  1.21.3-2.fc41              fedora       2.4 MiB
 libacl                            s390x  2.3.2-2.fc41               fedora      43.8 KiB
 libarchive                        s390x  3.7.6-1.fc42               fedora       1.0 MiB
 libattr                           s390x  2.5.2-4.fc41               fedora      28.3 KiB
 libblkid                          s390x  2.40.2-8.fc42              fedora     286.4 KiB
 libbrotli                         s390x  1.1.0-5.fc41               fedora     925.1 KiB
 libcap                            s390x  2.70-4.fc41                fedora     234.2 KiB
 libcap-ng                         s390x  0.8.5-3.fc41               fedora      76.7 KiB
 libcom_err                        s390x  1.47.1-3.fc41              fedora      67.0 KiB
 libcurl                           s390x  8.10.1-2.fc42              copr_base  882.3 KiB
 libeconf                          s390x  0.6.2-3.fc41               fedora      61.8 KiB
 libevent                          s390x  2.1.12-14.fc41             fedora     938.8 KiB
 libfdisk                          s390x  2.40.2-8.fc42              fedora     394.8 KiB
 libffi                            s390x  3.4.6-3.fc42               fedora      65.9 KiB
 libgcc                            s390x  14.2.1-3.fc42              fedora     177.2 KiB
 libgomp                           s390x  14.2.1-3.fc42              fedora     531.2 KiB
 libidn2                           s390x  2.3.7-2.fc41               fedora     328.9 KiB
 libmount                          s390x  2.40.2-8.fc42              fedora     375.8 KiB
 libnghttp2                        s390x  1.63.0-1.fc42              fedora     177.9 KiB
 libnsl2                           s390x  2.0.1-2.fc41               fedora      61.7 KiB
 libpkgconf                        s390x  2.3.0-1.fc42               fedora      85.9 KiB
 libpsl                            s390x  0.21.5-4.fc41              fedora      80.3 KiB
 libpwquality                      s390x  1.4.5-11.fc41              fedora     420.9 KiB
 libselinux                        s390x  3.7-6.fc42                 fedora     192.9 KiB
 libsemanage                       s390x  3.7-3.fc42                 fedora     305.4 KiB
 libsepol                          s390x  3.7-3.fc42                 fedora     849.8 KiB
 libsmartcols                      s390x  2.40.2-8.fc42              fedora     192.2 KiB
 libssh                            s390x  0.11.1-1.fc42              fedora     585.3 KiB
 libssh-config                     noarch 0.11.1-1.fc42              fedora     277.0   B
 libstdc++                         s390x  14.2.1-3.fc42              fedora       3.1 MiB
 libtasn1                          s390x  4.19.0-9.fc41              fedora     187.5 KiB
 libtirpc                          s390x  1.3.5-0.fc41               fedora     218.5 KiB
 libtool-ltdl                      s390x  2.4.7-12.fc41              fedora      74.0 KiB
 libunistring                      s390x  1.1-8.fc41                 fedora       1.8 MiB
 libuuid                           s390x  2.40.2-8.fc42              fedora      41.2 KiB
 libverto                          s390x  0.3.2-9.fc41               fedora      29.3 KiB
 libxcrypt                         s390x  4.4.36-7.fc41              fedora     274.7 KiB
 libxml2                           s390x  2.12.8-2.fc41              fedora       1.9 MiB
 libzstd                           s390x  1.5.6-2.fc41               fedora     875.7 KiB
 lua-libs                          s390x  5.4.6-6.fc41               fedora     320.9 KiB
 lua-srpm-macros                   noarch 1-14.fc41                  fedora       1.3 KiB
 lz4-libs                          s390x  1.10.0-1.fc41              fedora     201.3 KiB
 mpfr                              s390x  4.2.1-5.fc41               fedora     698.7 KiB
 ncurses-base                      noarch 6.5-2.20240629.fc41        fedora     326.3 KiB
 ncurses-libs                      s390x  6.5-2.20240629.fc41        fedora       1.1 MiB
 ocaml-srpm-macros                 noarch 10-3.fc41                  fedora       1.9 KiB
 openblas-srpm-macros              noarch 2-18.fc41                  fedora     112.0   B
 openldap                          s390x  2.6.8-5.fc41               fedora     683.6 KiB
 openssl-libs                      s390x  1:3.2.2-8.fc42             fedora       6.1 MiB
 p11-kit                           s390x  0.25.5-3.fc41              fedora       2.5 MiB
 p11-kit-trust                     s390x  0.25.5-3.fc41              fedora     475.2 KiB
 package-notes-srpm-macros         noarch 0.5-12.fc41                fedora       1.6 KiB
 pam                               s390x  1.6.1-6.fc42               fedora       1.8 MiB
 pam-libs                          s390x  1.6.1-6.fc42               fedora     138.4 KiB
 pcre2                             s390x  10.44-1.fc41.1             fedora     684.9 KiB
 pcre2-syntax                      noarch 10.44-1.fc41.1             fedora     251.6 KiB
 perl-srpm-macros                  noarch 1-56.fc41                  fedora     861.0   B
 pkgconf                           s390x  2.3.0-1.fc42               fedora      92.4 KiB
 pkgconf-m4                        noarch 2.3.0-1.fc42               fedora      14.4 KiB
 pkgconf-pkg-config                s390x  2.3.0-1.fc42               fedora     988.0   B
 popt                              s390x  1.19-7.fc41                fedora     144.7 KiB
 publicsuffix-list-dafsa           noarch 20240107-4.fc41            fedora      67.5 KiB
 pyproject-srpm-macros             noarch 1.15.0-1.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             fedora     500.0   B
 qt6-srpm-macros                   noarch 6.7.2-3.fc41               fedora     456.0   B
 readline                          s390x  8.2-11.fc42                fedora     556.8 KiB
 rpm                               s390x  4.19.94-1.fc42             fedora       3.1 MiB
 rpm-build-libs                    s390x  4.19.94-1.fc42             fedora     218.4 KiB
 rpm-libs                          s390x  4.19.94-1.fc42             fedora     813.6 KiB
 rpm-sequoia                       s390x  1.7.0-2.fc41               fedora       3.2 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                       s390x  3.46.0-4.fc41              fedora       1.6 MiB
 systemd-libs                      s390x  256.5-1.fc42               fedora       2.1 MiB
 util-linux-core                   s390x  2.40.2-8.fc42              fedora       1.5 MiB
 xxhash-libs                       s390x  0.8.2-3.fc41               fedora      68.0 KiB
 xz-libs                           s390x  1:5.6.2-2.fc41             fedora     226.1 KiB
 zig-srpm-macros                   noarch 1-3.fc41                   fedora       1.1 KiB
 zip                               s390x  3.0-41.fc41                fedora     750.2 KiB
 zlib-ng-compat                    s390x  2.2.2-1.fc42               copr_base  117.3 KiB
 zstd                              s390x  1.5.6-2.fc41               fedora       1.8 MiB
Installing groups:
 Buildsystem building group                                                              

Transaction Summary:
 Installing:       153 packages

Total size of inbound packages is 54 MiB. Need to download 54 MiB.
After this operation, 183 MiB extra will be used (install 183 MiB, remove 0 B).
[  1/153] bzip2-0:1.0.8-19.fc41.s390x   100% |  10.6 KiB/s |  53.2 KiB |  00m05s
[  2/153] cpio-0:2.15-2.fc41.s390x      100% |   2.2 MiB/s | 296.6 KiB |  00m00s
[  3/153] diffutils-0:3.10-8.fc41.s390x 100% |  10.8 MiB/s | 418.8 KiB |  00m00s
[  4/153] fedora-release-common-0:42-0. 100% |   1.3 MiB/s |  23.0 KiB |  00m00s
[  5/153] bash-0:5.2.32-2.fc42.s390x    100% | 363.4 KiB/s |   1.8 MiB |  00m05s
[  6/153] findutils-1:4.10.0-4.fc41.s39 100% |  20.2 MiB/s | 557.5 KiB |  00m00s
[  7/153] coreutils-0:9.5-9.fc42.s390x  100% | 230.6 KiB/s |   1.2 MiB |  00m05s
[  8/153] grep-0:3.11-9.fc41.s390x      100% |  15.0 MiB/s | 306.6 KiB |  00m00s
[  9/153] info-0:7.1.1-1.fc42.s390x     100% |   9.9 MiB/s | 193.3 KiB |  00m00s
[ 10/153] patch-0:2.7.6-25.fc41.s390x   100% |   7.6 MiB/s | 140.4 KiB |  00m00s
[ 11/153] redhat-rpm-config-0:296-1.fc4 100% |   4.7 MiB/s |  82.4 KiB |  00m00s
[ 12/153] rpm-build-0:4.19.94-1.fc42.s3 100% |   4.8 MiB/s |  83.9 KiB |  00m00s
[ 13/153] gzip-0:1.13-2.fc41.s390x      100% |   1.7 MiB/s | 177.2 KiB |  00m00s
[ 14/153] sed-0:4.9-3.fc41.s390x        100% |  14.9 MiB/s | 320.2 KiB |  00m00s
[ 15/153] gawk-0:5.3.0-4.fc41.s390x     100% |   7.4 MiB/s |   1.1 MiB |  00m00s
[ 16/153] unzip-0:6.0-64.fc41.s390x     100% |  10.0 MiB/s | 194.1 KiB |  00m00s
[ 17/153] tar-2:1.35-4.fc41.s390x       100% |  28.6 MiB/s | 877.7 KiB |  00m00s
[ 18/153] which-0:2.21-42.fc41.s390x    100% |   2.5 MiB/s |  43.0 KiB |  00m00s
[ 19/153] util-linux-0:2.40.2-8.fc42.s3 100% |  39.4 MiB/s |   1.1 MiB |  00m00s
[ 20/153] shadow-utils-2:4.16.0-4.fc42. 100% |  17.6 MiB/s |   1.3 MiB |  00m00s
[ 21/153] xz-1:5.6.2-2.fc41.s390x       100% |  17.1 MiB/s | 473.2 KiB |  00m00s
[ 22/153] filesystem-0:3.18-29.fc42.s39 100% |  41.8 MiB/s |   1.1 MiB |  00m00s
[ 23/153] ncurses-libs-0:6.5-2.20240629 100% |  17.6 MiB/s | 360.6 KiB |  00m00s
[ 24/153] glibc-minimal-langpack-0:2.40 100% |   3.0 MiB/s | 121.1 KiB |  00m00s
[ 25/153] bzip2-libs-0:1.0.8-19.fc41.s3 100% |   2.7 MiB/s |  46.3 KiB |  00m00s
[ 26/153] gmp-1:6.3.0-2.fc41.s390x      100% |  16.8 MiB/s | 326.3 KiB |  00m00s
[ 27/153] libacl-0:2.3.2-2.fc41.s390x   100% |   1.5 MiB/s |  25.4 KiB |  00m00s
[ 28/153] libattr-0:2.5.2-4.fc41.s390x  100% |   1.1 MiB/s |  18.4 KiB |  00m00s
[ 29/153] coreutils-common-0:9.5-9.fc42 100% |  49.3 MiB/s |   2.1 MiB |  00m00s
[ 30/153] libcap-0:2.70-4.fc41.s390x    100% |   5.1 MiB/s |  89.0 KiB |  00m00s
[ 31/153] libselinux-0:3.7-6.fc42.s390x 100% |   5.3 MiB/s |  91.5 KiB |  00m00s
[ 32/153] systemd-libs-0:256.5-1.fc42.s 100% |  26.9 MiB/s | 744.9 KiB |  00m00s
[ 33/153] fedora-repos-0:42-0.2.noarch  100% | 539.3 KiB/s |   9.2 KiB |  00m00s
[ 34/153] openssl-libs-1:3.2.2-8.fc42.s 100% |  66.1 MiB/s |   2.0 MiB |  00m00s
[ 35/153] mpfr-0:4.2.1-5.fc41.s390x     100% |  15.3 MiB/s | 297.8 KiB |  00m00s
[ 36/153] readline-0:8.2-11.fc42.s390x  100% |  12.5 MiB/s | 229.7 KiB |  00m00s
[ 37/153] pcre2-0:10.44-1.fc41.1.s390x  100% |  14.2 MiB/s | 260.8 KiB |  00m00s
[ 38/153] ed-0:1.20.2-2.fc41.s390x      100% |   4.8 MiB/s |  83.3 KiB |  00m00s
[ 39/153] ansible-srpm-macros-0:1-16.fc 100% |   1.3 MiB/s |  20.8 KiB |  00m00s
[ 40/153] build-reproducibility-srpm-ma 100% | 662.7 KiB/s |  10.6 KiB |  00m00s
[ 41/153] efi-srpm-macros-0:5-12.fc41.n 100% |   1.3 MiB/s |  22.4 KiB |  00m00s
[ 42/153] dwz-0:0.15-7.fc41.s390x       100% |   8.3 MiB/s | 144.0 KiB |  00m00s
[ 43/153] fonts-srpm-macros-1:2.0.5-17. 100% |   1.6 MiB/s |  27.0 KiB |  00m00s
[ 44/153] forge-srpm-macros-0:0.3.2-1.f 100% |   1.2 MiB/s |  19.7 KiB |  00m00s
[ 45/153] fpc-srpm-macros-0:1.3-13.fc41 100% | 497.6 KiB/s |   8.0 KiB |  00m00s
[ 46/153] ghc-srpm-macros-0:1.9.2-1.fc4 100% | 569.8 KiB/s |   9.1 KiB |  00m00s
[ 47/153] gnat-srpm-macros-0:6-6.fc41.n 100% | 559.5 KiB/s |   9.0 KiB |  00m00s
[ 48/153] go-srpm-macros-0:3.6.0-3.fc41 100% |   1.6 MiB/s |  28.0 KiB |  00m00s
[ 49/153] kernel-srpm-macros-0:1.0-24.f 100% | 616.8 KiB/s |   9.9 KiB |  00m00s
[ 50/153] lua-srpm-macros-0:1-14.fc41.n 100% | 554.9 KiB/s |   8.9 KiB |  00m00s
[ 51/153] ocaml-srpm-macros-0:10-3.fc41 100% | 575.0 KiB/s |   9.2 KiB |  00m00s
[ 52/153] openblas-srpm-macros-0:2-18.f 100% | 482.2 KiB/s |   7.7 KiB |  00m00s
[ 53/153] package-notes-srpm-macros-0:0 100% | 614.3 KiB/s |   9.8 KiB |  00m00s
[ 54/153] perl-srpm-macros-0:1-56.fc41. 100% | 532.0 KiB/s |   8.5 KiB |  00m00s
[ 55/153] pyproject-srpm-macros-0:1.15. 100% | 846.9 KiB/s |  13.5 KiB |  00m00s
[ 56/153] python-srpm-macros-0:3.13-3.f 100% |   1.4 MiB/s |  23.7 KiB |  00m00s
[ 57/153] qt5-srpm-macros-0:5.15.15-1.f 100% | 556.2 KiB/s |   8.9 KiB |  00m00s
[ 58/153] qt6-srpm-macros-0:6.7.2-3.fc4 100% | 570.4 KiB/s |   9.1 KiB |  00m00s
[ 59/153] rust-srpm-macros-0:26.3-3.fc4 100% | 756.2 KiB/s |  12.1 KiB |  00m00s
[ 60/153] zig-srpm-macros-0:1-3.fc41.no 100% | 507.7 KiB/s |   8.1 KiB |  00m00s
[ 61/153] rpm-0:4.19.94-1.fc42.s390x    100% |  25.4 MiB/s | 546.6 KiB |  00m00s
[ 62/153] debugedit-0:5.0-17.fc41.s390x 100% |   4.7 MiB/s |  82.4 KiB |  00m00s
[ 63/153] zip-0:3.0-41.fc41.s390x       100% |  15.3 MiB/s | 282.1 KiB |  00m00s
[ 64/153] libarchive-0:3.7.6-1.fc42.s39 100% |  21.8 MiB/s | 446.4 KiB |  00m00s
[ 65/153] pkgconf-pkg-config-0:2.3.0-1. 100% | 620.1 KiB/s |   9.9 KiB |  00m00s
[ 66/153] popt-0:1.19-7.fc41.s390x      100% |   3.9 MiB/s |  68.5 KiB |  00m00s
[ 67/153] rpm-build-libs-0:4.19.94-1.fc 100% |   5.8 MiB/s | 100.9 KiB |  00m00s
[ 68/153] rpm-libs-0:4.19.94-1.fc42.s39 100% |  16.7 MiB/s | 324.6 KiB |  00m00s
[ 69/153] zstd-0:1.5.6-2.fc41.s390x     100% |  25.3 MiB/s | 517.6 KiB |  00m00s
[ 70/153] audit-libs-0:4.0.2-1.fc41.s39 100% |   7.3 MiB/s | 126.6 KiB |  00m00s
[ 71/153] libeconf-0:0.6.2-3.fc41.s390x 100% |   2.0 MiB/s |  34.1 KiB |  00m00s
[ 72/153] libsemanage-0:3.7-3.fc42.s390 100% |   6.9 MiB/s | 119.3 KiB |  00m00s
[ 73/153] libxcrypt-0:4.4.36-7.fc41.s39 100% |   7.1 MiB/s | 123.7 KiB |  00m00s
[ 74/153] pam-libs-0:1.6.1-6.fc42.s390x 100% |   3.4 MiB/s |  58.7 KiB |  00m00s
[ 75/153] setup-0:2.15.0-5.fc41.noarch  100% |   8.9 MiB/s | 154.4 KiB |  00m00s
[ 76/153] authselect-libs-0:1.5.0-7.fc4 100% |  11.8 MiB/s | 217.2 KiB |  00m00s
[ 77/153] libblkid-0:2.40.2-8.fc42.s390 100% |   7.5 MiB/s | 130.8 KiB |  00m00s
[ 78/153] libcap-ng-0:0.8.5-3.fc41.s390 100% |   2.0 MiB/s |  33.2 KiB |  00m00s
[ 79/153] libfdisk-0:2.40.2-8.fc42.s390 100% |   9.0 MiB/s | 165.6 KiB |  00m00s
[ 80/153] libmount-0:2.40.2-8.fc42.s390 100% |   9.2 MiB/s | 159.7 KiB |  00m00s
[ 81/153] libsmartcols-0:2.40.2-8.fc42. 100% |   4.9 MiB/s |  86.0 KiB |  00m00s
[ 82/153] libuuid-0:2.40.2-8.fc42.s390x 100% |   1.7 MiB/s |  29.2 KiB |  00m00s
[ 83/153] pam-0:1.6.1-6.fc42.s390x      100% |  27.4 MiB/s | 561.8 KiB |  00m00s
[ 84/153] util-linux-core-0:2.40.2-8.fc 100% |  25.3 MiB/s | 543.8 KiB |  00m00s
[ 85/153] xz-libs-1:5.6.2-2.fc41.s390x  100% |   6.8 MiB/s | 118.0 KiB |  00m00s
[ 86/153] ncurses-base-0:6.5-2.20240629 100% |   5.1 MiB/s |  88.4 KiB |  00m00s
[ 87/153] glibc-common-0:2.40.9000-5.fc 100% |  12.0 MiB/s | 419.1 KiB |  00m00s
[ 88/153] libgcc-0:14.2.1-3.fc42.s390x  100% |   5.2 MiB/s |  90.3 KiB |  00m00s
[ 89/153] glibc-0:2.40.9000-5.fc42.s390 100% |  45.8 MiB/s |   1.9 MiB |  00m00s
[ 90/153] crypto-policies-0:20240828-1. 100% |   5.4 MiB/s |  94.6 KiB |  00m00s
[ 91/153] libsepol-0:3.7-3.fc42.s390x   100% |  15.4 MiB/s | 347.7 KiB |  00m00s
[ 92/153] ca-certificates-0:2024.2.69_v 100% |  41.9 MiB/s | 944.3 KiB |  00m00s
[ 93/153] fedora-gpg-keys-0:42-0.2.noar 100% |   7.7 MiB/s | 133.6 KiB |  00m00s
[ 94/153] fedora-repos-rawhide-0:42-0.2 100% | 514.1 KiB/s |   8.7 KiB |  00m00s
[ 95/153] pcre2-syntax-0:10.44-1.fc41.1 100% |   8.6 MiB/s | 149.9 KiB |  00m00s
[ 96/153] libzstd-0:1.5.6-2.fc41.s390x  100% |  16.1 MiB/s | 346.9 KiB |  00m00s
[ 97/153] libxml2-0:2.12.8-2.fc41.s390x 100% |  27.6 MiB/s | 707.0 KiB |  00m00s
[ 98/153] add-determinism-0:0.3.6-1.fc4 100% |  38.8 MiB/s |   1.0 MiB |  00m00s
[ 99/153] lz4-libs-0:1.10.0-1.fc41.s390 100% |   5.4 MiB/s |  94.7 KiB |  00m00s
[100/153] pkgconf-0:2.3.0-1.fc42.s390x  100% |   2.6 MiB/s |  45.8 KiB |  00m00s
[101/153] pkgconf-m4-0:2.3.0-1.fc42.noa 100% | 895.1 KiB/s |  14.3 KiB |  00m00s
[102/153] libgomp-0:14.2.1-3.fc42.s390x 100% |  18.4 MiB/s | 357.7 KiB |  00m00s
[103/153] lua-libs-0:5.4.6-6.fc41.s390x 100% |   7.3 MiB/s | 141.7 KiB |  00m00s
[104/153] rpm-sequoia-0:1.7.0-2.fc41.s3 100% |  40.9 MiB/s |   1.0 MiB |  00m00s
[105/153] sqlite-libs-0:3.46.0-4.fc41.s 100% |  31.2 MiB/s | 765.9 KiB |  00m00s
[106/153] authselect-0:1.5.0-7.fc41.s39 100% |   8.3 MiB/s | 145.2 KiB |  00m00s
[107/153] libstdc++-0:14.2.1-3.fc42.s39 100% |  37.1 MiB/s | 989.1 KiB |  00m00s
[108/153] gdbm-1:1.23-7.fc41.s390x      100% |   8.9 MiB/s | 155.4 KiB |  00m00s
[109/153] gdbm-libs-1:1.23-7.fc41.s390x 100% |   3.3 MiB/s |  58.0 KiB |  00m00s
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[111/153] libpwquality-0:1.4.5-11.fc41. 100% |   6.5 MiB/s | 119.9 KiB |  00m00s
[112/153] libtirpc-0:1.3.5-0.fc41.s390x 100% |   5.2 MiB/s |  96.7 KiB |  00m00s
[113/153] glibc-gconv-extra-0:2.40.9000 100% |  72.9 MiB/s |   1.7 MiB |  00m00s
[114/153] basesystem-0:11-21.fc41.noarc 100% | 460.8 KiB/s |   7.4 KiB |  00m00s
[115/153] libffi-0:3.4.6-3.fc42.s390x   100% |   2.2 MiB/s |  36.0 KiB |  00m00s
[116/153] p11-kit-0:0.25.5-3.fc41.s390x 100% |  24.8 MiB/s | 533.0 KiB |  00m00s
[117/153] p11-kit-trust-0:0.25.5-3.fc41 100% |   8.2 MiB/s | 143.2 KiB |  00m00s
[118/153] libpkgconf-0:2.3.0-1.fc42.s39 100% |   2.4 MiB/s |  39.0 KiB |  00m00s
[119/153] libcom_err-0:1.47.1-3.fc41.s3 100% |   1.5 MiB/s |  26.4 KiB |  00m00s
[120/153] krb5-libs-0:1.21.3-2.fc41.s39 100% |  31.8 MiB/s | 781.9 KiB |  00m00s
[121/153] libtasn1-0:4.19.0-9.fc41.s390 100% |   4.5 MiB/s |  78.0 KiB |  00m00s
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[126/153] elfutils-libelf-0:0.191-8.fc4 100% |  14.9 MiB/s | 213.7 KiB |  00m00s
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[129/153] elfutils-0:0.191-8.fc42.s390x 100% |  35.6 MiB/s | 582.9 KiB |  00m00s
[130/153] file-libs-0:5.45-7.fc42.s390x 100% |  41.7 MiB/s | 769.3 KiB |  00m00s
[131/153] file-0:5.45-7.fc42.s390x      100% |   4.9 MiB/s |  49.7 KiB |  00m00s
[132/153] jansson-0:2.13.1-10.fc41.s390 100% |   2.6 MiB/s |  44.6 KiB |  00m00s
[133/153] curl-0:8.10.1-2.fc42.s390x    100% |   6.5 MiB/s | 226.2 KiB |  00m00s
[134/153] binutils-0:2.43.50-1.fc42.s39 100% | 128.9 MiB/s |   6.1 MiB |  00m00s
[135/153] elfutils-default-yama-scope-0 100% |   1.8 MiB/s |  12.8 KiB |  00m00s
[136/153] cracklib-0:2.9.11-6.fc42.s390 100% |   3.2 MiB/s |  84.1 KiB |  00m00s
[137/153] fedora-release-0:42-0.3.noarc 100% | 719.3 KiB/s |  12.2 KiB |  00m00s
[138/153] xxhash-libs-0:0.8.2-3.fc41.s3 100% |   2.1 MiB/s |  36.4 KiB |  00m00s
[139/153] fedora-release-identity-basic 100% | 765.6 KiB/s |  13.0 KiB |  00m00s
[140/153] gdb-minimal-0:15.1-2.fc42.s39 100% | 108.8 MiB/s |   4.6 MiB |  00m00s
[141/153] libcurl-0:8.10.1-2.fc42.s390x 100% |  14.1 MiB/s | 388.5 KiB |  00m00s
[142/153] libbrotli-0:1.1.0-5.fc41.s390 100% |  19.6 MiB/s | 381.7 KiB |  00m00s
[143/153] libidn2-0:2.3.7-2.fc41.s390x  100% |   6.8 MiB/s | 118.4 KiB |  00m00s
[144/153] libnghttp2-0:1.63.0-1.fc42.s3 100% |   4.6 MiB/s |  79.7 KiB |  00m00s
[145/153] libpsl-0:0.21.5-4.fc41.s390x  100% |   3.7 MiB/s |  64.5 KiB |  00m00s
[146/153] libssh-0:0.11.1-1.fc42.s390x  100% |  12.5 MiB/s | 229.8 KiB |  00m00s
[147/153] openldap-0:2.6.8-5.fc41.s390x 100% |  13.5 MiB/s | 262.0 KiB |  00m00s
[148/153] libunistring-0:1.1-8.fc41.s39 100% |  28.7 MiB/s | 558.7 KiB |  00m00s
[149/153] publicsuffix-list-dafsa-0:202 100% |   3.3 MiB/s |  58.3 KiB |  00m00s
[150/153] libssh-config-0:0.11.1-1.fc42 100% | 586.6 KiB/s |   9.4 KiB |  00m00s
[151/153] cyrus-sasl-lib-0:2.1.28-27.fc 100% |  40.4 MiB/s | 827.5 KiB |  00m00s
[152/153] libevent-0:2.1.12-14.fc41.s39 100% |  14.1 MiB/s | 260.1 KiB |  00m00s
[153/153] libtool-ltdl-0:2.4.7-12.fc41. 100% |   2.2 MiB/s |  36.6 KiB |  00m00s
--------------------------------------------------------------------------------
[153/153] Total                         100% |   8.5 MiB/s |  53.7 MiB |  00m06s
Running transaction
Importing PGP 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 PGP 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 PGP 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 PGP 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.
[  1/155] Verify package files          100% | 761.0   B/s | 153.0   B |  00m00s
[  2/155] Prepare transaction           100% |   2.8 KiB/s | 153.0   B |  00m00s
[  3/155] Installing libgcc-0:14.2.1-3. 100% | 174.7 MiB/s | 178.9 KiB |  00m00s
[  4/155] Installing libssh-config-0:0. 100% |   0.0   B/s | 816.0   B |  00m00s
[  5/155] Installing publicsuffix-list- 100% |   0.0   B/s |  68.3 KiB |  00m00s
[  6/155] Installing fedora-release-ide 100% |   0.0   B/s | 952.0   B |  00m00s
[  7/155] Installing fedora-repos-rawhi 100% |   0.0   B/s |   2.4 KiB |  00m00s
[  8/155] Installing fedora-gpg-keys-0: 100% |  42.0 MiB/s | 172.2 KiB |  00m00s
[  9/155] Installing fedora-repos-0:42- 100% |   0.0   B/s |   5.7 KiB |  00m00s
[ 10/155] Installing fedora-release-com 100% |  23.1 MiB/s |  23.7 KiB |  00m00s
[ 11/155] Installing fedora-release-0:4 100% |   0.0   B/s | 124.0   B |  00m00s
[ 12/155] Installing setup-0:2.15.0-5.f 100% |  50.6 MiB/s | 726.1 KiB |  00m00s
[ 13/155] Installing filesystem-0:3.18- 100% |   3.2 MiB/s | 212.6 KiB |  00m00s
[ 14/155] Installing basesystem-0:11-21 100% |   0.0   B/s | 124.0   B |  00m00s
[ 15/155] Installing pkgconf-m4-0:2.3.0 100% |   0.0   B/s |  14.8 KiB |  00m00s
[ 16/155] Installing pcre2-syntax-0:10. 100% | 248.1 MiB/s | 254.1 KiB |  00m00s
[ 17/155] Installing ncurses-base-0:6.5 100% |  85.9 MiB/s | 351.7 KiB |  00m00s
[ 18/155] Installing glibc-minimal-lang 100% |   0.0   B/s | 124.0   B |  00m00s
[ 19/155] Installing ncurses-libs-0:6.5 100% | 177.1 MiB/s |   1.1 MiB |  00m00s
warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
[ 20/155] Installing glibc-0:2.40.9000- 100% | 170.4 MiB/s |   5.1 MiB |  00m00s
[ 21/155] Installing bash-0:5.2.32-2.fc 100% | 269.8 MiB/s |   8.4 MiB |  00m00s
[ 22/155] Installing glibc-common-0:2.4 100% | 153.6 MiB/s |   1.1 MiB |  00m00s
warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
[ 23/155] Installing glibc-gconv-extra- 100% | 190.6 MiB/s |   6.9 MiB |  00m00s
[ 24/155] Installing zlib-ng-compat-0:2 100% | 115.3 MiB/s | 118.1 KiB |  00m00s
[ 25/155] Installing bzip2-libs-0:1.0.8 100% |   0.0   B/s |  89.6 KiB |  00m00s
[ 26/155] Installing xz-libs-1:5.6.2-2. 100% | 221.9 MiB/s | 227.2 KiB |  00m00s
[ 27/155] Installing readline-0:8.2-11. 100% | 181.9 MiB/s | 558.9 KiB |  00m00s
[ 28/155] Installing popt-0:1.19-7.fc41 100% |  73.9 MiB/s | 151.3 KiB |  00m00s
[ 29/155] Installing libuuid-0:2.40.2-8 100% |   0.0   B/s |  42.3 KiB |  00m00s
[ 30/155] Installing libblkid-0:2.40.2- 100% | 280.8 MiB/s | 287.6 KiB |  00m00s
[ 31/155] Installing gmp-1:6.3.0-2.fc41 100% | 251.4 MiB/s | 772.2 KiB |  00m00s
[ 32/155] Installing libattr-0:2.5.2-4. 100% |   0.0   B/s |  29.3 KiB |  00m00s
[ 33/155] Installing libacl-0:2.3.2-2.f 100% |   0.0   B/s |  44.6 KiB |  00m00s
[ 34/155] Installing libxcrypt-0:4.4.36 100% | 270.9 MiB/s | 277.4 KiB |  00m00s
[ 35/155] Installing libzstd-0:1.5.6-2. 100% | 214.1 MiB/s | 877.0 KiB |  00m00s
[ 36/155] Installing elfutils-libelf-0: 100% | 294.2 MiB/s |   1.2 MiB |  00m00s
[ 37/155] Installing libstdc++-0:14.2.1 100% | 260.2 MiB/s |   3.1 MiB |  00m00s
[ 38/155] Installing libeconf-0:0.6.2-3 100% |  62.0 MiB/s |  63.5 KiB |  00m00s
[ 39/155] Installing gdbm-libs-1:1.23-7 100% | 132.0 MiB/s | 135.1 KiB |  00m00s
[ 40/155] Installing dwz-0:0.15-7.fc41. 100% | 156.2 MiB/s | 320.0 KiB |  00m00s
[ 41/155] Installing mpfr-0:4.2.1-5.fc4 100% | 228.0 MiB/s | 700.4 KiB |  00m00s
[ 42/155] Installing gawk-0:5.3.0-4.fc4 100% | 226.8 MiB/s |   1.8 MiB |  00m00s
[ 43/155] Installing unzip-0:6.0-64.fc4 100% | 201.9 MiB/s | 413.5 KiB |  00m00s
[ 44/155] Installing file-libs-0:5.45-7 100% | 473.4 MiB/s |   9.9 MiB |  00m00s
[ 45/155] Installing file-0:5.45-7.fc42 100% |  19.7 MiB/s | 100.7 KiB |  00m00s
[ 46/155] Installing crypto-policies-0: 100% |  31.9 MiB/s | 163.2 KiB |  00m00s
[ 47/155] Installing pcre2-0:10.44-1.fc 100% | 223.4 MiB/s | 686.3 KiB |  00m00s
[ 48/155] Installing grep-0:3.11-9.fc41 100% | 169.8 MiB/s |   1.0 MiB |  00m00s
[ 49/155] Installing xz-1:5.6.2-2.fc41. 100% | 201.4 MiB/s |   1.2 MiB |  00m00s
[ 50/155] Installing libcap-ng-0:0.8.5- 100% |  76.7 MiB/s |  78.6 KiB |  00m00s
[ 51/155] Installing audit-libs-0:4.0.2 100% | 172.4 MiB/s | 353.0 KiB |  00m00s
[ 52/155] Installing pam-libs-0:1.6.1-6 100% | 137.5 MiB/s | 140.8 KiB |  00m00s
[ 53/155] Installing libcap-0:2.70-4.fc 100% | 116.8 MiB/s | 239.2 KiB |  00m00s
[ 54/155] Installing systemd-libs-0:256 100% | 230.9 MiB/s |   2.1 MiB |  00m00s
[ 55/155] Installing libsmartcols-0:2.4 100% | 188.7 MiB/s | 193.2 KiB |  00m00s
[ 56/155] Installing libsepol-0:3.7-3.f 100% | 207.7 MiB/s | 850.7 KiB |  00m00s
[ 57/155] Installing libselinux-0:3.7-6 100% | 189.6 MiB/s | 194.2 KiB |  00m00s
[ 58/155] Installing sed-0:4.9-3.fc41.s 100% | 172.1 MiB/s | 881.4 KiB |  00m00s
[ 59/155] Installing findutils-1:4.10.0 100% | 270.4 MiB/s |   1.9 MiB |  00m00s
[ 60/155] Installing libmount-0:2.40.2- 100% | 184.0 MiB/s | 376.9 KiB |  00m00s
[ 61/155] Installing lz4-libs-0:1.10.0- 100% | 197.6 MiB/s | 202.4 KiB |  00m00s
[ 62/155] Installing lua-libs-0:5.4.6-6 100% | 157.3 MiB/s | 322.1 KiB |  00m00s
[ 63/155] Installing libffi-0:3.4.6-3.f 100% |  65.7 MiB/s |  67.3 KiB |  00m00s
[ 64/155] Installing libcom_err-0:1.47. 100% |   0.0   B/s |  68.1 KiB |  00m00s
[ 65/155] Installing libtasn1-0:4.19.0- 100% | 184.9 MiB/s | 189.3 KiB |  00m00s
[ 66/155] Installing p11-kit-0:0.25.5-3 100% | 227.6 MiB/s |   2.5 MiB |  00m00s
[ 67/155] Installing alternatives-0:1.3 100% |  70.0 MiB/s |  71.7 KiB |  00m00s
[ 68/155] Installing libunistring-0:1.1 100% | 253.3 MiB/s |   1.8 MiB |  00m00s
[ 69/155] Installing libidn2-0:2.3.7-2. 100% | 109.0 MiB/s | 334.9 KiB |  00m00s
[ 70/155] Installing libpsl-0:0.21.5-4. 100% |   0.0   B/s |  81.4 KiB |  00m00s
[ 71/155] Installing p11-kit-trust-0:0. 100% |  66.5 MiB/s | 476.8 KiB |  00m00s
[ 72/155] Installing zstd-0:1.5.6-2.fc4 100% | 229.4 MiB/s |   1.8 MiB |  00m00s
[ 73/155] Installing util-linux-core-0: 100% | 192.9 MiB/s |   1.5 MiB |  00m00s
[ 74/155] Installing tar-2:1.35-4.fc41. 100% | 274.6 MiB/s |   3.0 MiB |  00m00s
[ 75/155] Installing libsemanage-0:3.7- 100% | 100.0 MiB/s | 307.1 KiB |  00m00s
[ 76/155] Installing shadow-utils-2:4.1 100% | 198.9 MiB/s |   4.2 MiB |  00m00s
[ 77/155] Installing zip-0:3.0-41.fc41. 100% | 245.5 MiB/s | 754.1 KiB |  00m00s
[ 78/155] Installing gdbm-1:1.23-7.fc41 100% | 159.1 MiB/s | 488.8 KiB |  00m00s
[ 79/155] Installing cyrus-sasl-lib-0:2 100% | 265.4 MiB/s |   2.4 MiB |  00m00s
[ 80/155] Installing libfdisk-0:2.40.2- 100% | 193.3 MiB/s | 395.9 KiB |  00m00s
[ 81/155] Installing libxml2-0:2.12.8-2 100% | 234.9 MiB/s |   1.9 MiB |  00m00s
[ 82/155] Installing bzip2-0:1.0.8-19.f 100% | 101.3 MiB/s | 103.7 KiB |  00m00s
[ 83/155] Installing add-determinism-0: 100% | 253.8 MiB/s |   3.0 MiB |  00m00s
[ 84/155] Installing build-reproducibil 100% |   0.0   B/s |   1.0 KiB |  00m00s
[ 85/155] Installing sqlite-libs-0:3.46 100% | 227.1 MiB/s |   1.6 MiB |  00m00s
[ 86/155] Installing ed-0:1.20.2-2.fc41 100% | 149.3 MiB/s | 152.9 KiB |  00m00s
[ 87/155] Installing patch-0:2.7.6-25.f 100% | 146.4 MiB/s | 299.9 KiB |  00m00s
[ 88/155] Installing elfutils-default-y 100% | 510.7 KiB/s |   2.0 KiB |  00m00s
[ 89/155] Installing elfutils-libs-0:0. 100% | 180.6 MiB/s | 739.9 KiB |  00m00s
[ 90/155] Installing cpio-0:2.15-2.fc41 100% | 223.8 MiB/s |   1.1 MiB |  00m00s
[ 91/155] Installing diffutils-0:3.10-8 100% | 232.6 MiB/s |   1.6 MiB |  00m00s
[ 92/155] Installing libgomp-0:14.2.1-3 100% | 260.1 MiB/s | 532.6 KiB |  00m00s
[ 93/155] Installing libpkgconf-0:2.3.0 100% |  84.9 MiB/s |  87.0 KiB |  00m00s
[ 94/155] Installing pkgconf-0:2.3.0-1. 100% |  92.7 MiB/s |  94.9 KiB |  00m00s
[ 95/155] Installing pkgconf-pkg-config 100% |   0.0   B/s |   1.8 KiB |  00m00s
[ 96/155] Installing keyutils-libs-0:1. 100% |  54.3 MiB/s |  55.6 KiB |  00m00s
[ 97/155] Installing libverto-0:0.3.2-9 100% |   0.0   B/s |  31.1 KiB |  00m00s
[ 98/155] Installing jansson-0:2.13.1-1 100% |  91.3 MiB/s |  93.5 KiB |  00m00s
[ 99/155] Installing xxhash-libs-0:0.8. 100% |  67.8 MiB/s |  69.4 KiB |  00m00s
[100/155] Installing libbrotli-0:1.1.0- 100% | 226.4 MiB/s | 927.4 KiB |  00m00s
[101/155] Installing libnghttp2-0:1.63. 100% | 174.9 MiB/s | 179.1 KiB |  00m00s
[102/155] Installing libtool-ltdl-0:2.4 100% |   0.0   B/s |  75.1 KiB |  00m00s
[103/155] Installing rust-srpm-macros-0 100% |   0.0   B/s |   5.6 KiB |  00m00s
[104/155] Installing qt6-srpm-macros-0: 100% |   0.0   B/s | 732.0   B |  00m00s
[105/155] Installing qt5-srpm-macros-0: 100% |   0.0   B/s | 776.0   B |  00m00s
[106/155] Installing perl-srpm-macros-0 100% |   0.0   B/s |   1.1 KiB |  00m00s
[107/155] Installing package-notes-srpm 100% |   0.0   B/s |   2.0 KiB |  00m00s
[108/155] Installing openblas-srpm-macr 100% |   0.0   B/s | 392.0   B |  00m00s
[109/155] Installing ocaml-srpm-macros- 100% |   0.0   B/s |   2.2 KiB |  00m00s
[110/155] Installing kernel-srpm-macros 100% |   0.0   B/s |   2.3 KiB |  00m00s
[111/155] Installing gnat-srpm-macros-0 100% |   0.0   B/s |   1.3 KiB |  00m00s
[112/155] Installing ghc-srpm-macros-0: 100% |   0.0   B/s |   1.0 KiB |  00m00s
[113/155] Installing fpc-srpm-macros-0: 100% |   0.0   B/s | 420.0   B |  00m00s
[114/155] Installing ansible-srpm-macro 100% |  35.4 MiB/s |  36.2 KiB |  00m00s
[115/155] Installing coreutils-common-0 100% | 302.4 MiB/s |  11.2 MiB |  00m00s
[116/155] Installing openssl-libs-1:3.2 100% | 255.9 MiB/s |   6.1 MiB |  00m00s
[117/155] Installing coreutils-0:9.5-9. 100% | 247.8 MiB/s |   6.2 MiB |  00m00s
[118/155] Installing ca-certificates-0: 100% |   1.7 MiB/s |   2.4 MiB |  00m01s
[119/155] Installing krb5-libs-0:1.21.3 100% | 188.7 MiB/s |   2.5 MiB |  00m00s
[120/155] Installing libarchive-0:3.7.6 100% | 200.1 MiB/s |   1.0 MiB |  00m00s
[121/155] Installing libtirpc-0:1.3.5-0 100% | 107.6 MiB/s | 220.3 KiB |  00m00s
[122/155] Installing gzip-0:1.13-2.fc41 100% | 132.3 MiB/s | 406.3 KiB |  00m00s
[123/155] Installing authselect-libs-0: 100% | 163.0 MiB/s | 834.5 KiB |  00m00s
[124/155] Installing cracklib-0:2.9.11- 100% |  78.6 MiB/s | 241.4 KiB |  00m00s
[125/155] Installing libpwquality-0:1.4 100% | 105.8 MiB/s | 433.3 KiB |  00m00s
[126/155] Installing libnsl2-0:2.0.1-2. 100% |  61.4 MiB/s |  62.8 KiB |  00m00s
[127/155] Installing pam-0:1.6.1-6.fc42 100% | 144.1 MiB/s |   1.9 MiB |  00m00s
[128/155] Installing libssh-0:0.11.1-1. 100% | 191.2 MiB/s | 587.4 KiB |  00m00s
[129/155] Installing rpm-sequoia-0:1.7. 100% | 244.6 MiB/s |   3.2 MiB |  00m00s
[130/155] Installing rpm-libs-0:4.19.94 100% | 199.0 MiB/s | 815.1 KiB |  00m00s
[131/155] Installing rpm-build-libs-0:4 100% | 214.1 MiB/s | 219.3 KiB |  00m00s
[132/155] Installing libevent-0:2.1.12- 100% | 230.1 MiB/s | 942.6 KiB |  00m00s
[133/155] Installing openldap-0:2.6.8-5 100% | 223.8 MiB/s | 687.4 KiB |  00m00s
[134/155] Installing libcurl-0:8.10.1-2 100% | 215.7 MiB/s | 883.5 KiB |  00m00s
[135/155] Installing elfutils-debuginfo 100% |  57.0 MiB/s |  58.4 KiB |  00m00s
[136/155] Installing elfutils-0:0.191-8 100% | 263.7 MiB/s |   2.9 MiB |  00m00s
[137/155] Installing binutils-0:2.43.50 100% | 289.3 MiB/s |  26.9 MiB |  00m00s
[138/155] Installing gdb-minimal-0:15.1 100% | 276.9 MiB/s |  15.0 MiB |  00m00s
[139/155] Installing debugedit-0:5.0-17 100% | 200.7 MiB/s | 205.5 KiB |  00m00s
[140/155] Installing curl-0:8.10.1-2.fc 100% |  59.0 MiB/s | 483.6 KiB |  00m00s
[141/155] Installing rpm-0:4.19.94-1.fc 100% | 147.3 MiB/s |   2.5 MiB |  00m00s
[142/155] Installing efi-srpm-macros-0: 100% |   0.0   B/s |  41.2 KiB |  00m00s
[143/155] Installing lua-srpm-macros-0: 100% |   0.0   B/s |   1.9 KiB |  00m00s
[144/155] Installing zig-srpm-macros-0: 100% |   0.0   B/s |   1.7 KiB |  00m00s
[145/155] Installing fonts-srpm-macros- 100% |  55.7 MiB/s |  57.0 KiB |  00m00s
[146/155] Installing forge-srpm-macros- 100% |   0.0   B/s |  40.4 KiB |  00m00s
[147/155] Installing go-srpm-macros-0:3 100% |   0.0   B/s |  62.0 KiB |  00m00s
[148/155] Installing python-srpm-macros 100% |  50.9 MiB/s |  52.2 KiB |  00m00s
[149/155] Installing redhat-rpm-config- 100% |  94.4 MiB/s | 193.2 KiB |  00m00s
[150/155] Installing rpm-build-0:4.19.9 100% | 102.1 MiB/s | 209.1 KiB |  00m00s
[151/155] Installing pyproject-srpm-mac 100% |   1.2 MiB/s |   2.5 KiB |  00m00s
[152/155] Installing util-linux-0:2.40. 100% | 155.4 MiB/s |   3.7 MiB |  00m00s
[153/155] Installing authselect-0:1.5.0 100% |  77.0 MiB/s | 157.7 KiB |  00m00s
[154/155] Installing which-0:2.21-42.fc 100% |  84.1 MiB/s |  86.1 KiB |  00m00s
warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
[155/155] Installing info-0:7.1.1-1.fc4 100% | 215.3 KiB/s | 409.5 KiB |  00m02s
Warning: skipped PGP checks for 17 packages from repository: copr_base
Complete!
Finish: installing minimal buildroot with dnf5
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: add-determinism-0.3.6-1.fc41.s390x
alternatives-1.30-1.fc41.s390x
ansible-srpm-macros-1-16.fc41.noarch
audit-libs-4.0.2-1.fc41.s390x
authselect-1.5.0-7.fc41.s390x
authselect-libs-1.5.0-7.fc41.s390x
basesystem-11-21.fc41.noarch
bash-5.2.32-2.fc42.s390x
binutils-2.43.50-1.fc42.s390x
build-reproducibility-srpm-macros-0.3.6-1.fc41.noarch
bzip2-1.0.8-19.fc41.s390x
bzip2-libs-1.0.8-19.fc41.s390x
ca-certificates-2024.2.69_v8.0.401-1.fc42.noarch
coreutils-9.5-9.fc42.s390x
coreutils-common-9.5-9.fc42.s390x
cpio-2.15-2.fc41.s390x
cracklib-2.9.11-6.fc42.s390x
crypto-policies-20240828-1.git5f66e81.fc42.noarch
curl-8.10.1-2.fc42.s390x
cyrus-sasl-lib-2.1.28-27.fc41.s390x
debugedit-5.0-17.fc41.s390x
diffutils-3.10-8.fc41.s390x
dwz-0.15-7.fc41.s390x
ed-1.20.2-2.fc41.s390x
efi-srpm-macros-5-12.fc41.noarch
elfutils-0.191-8.fc42.s390x
elfutils-debuginfod-client-0.191-8.fc42.s390x
elfutils-default-yama-scope-0.191-8.fc42.noarch
elfutils-libelf-0.191-8.fc42.s390x
elfutils-libs-0.191-8.fc42.s390x
fedora-gpg-keys-42-0.2.noarch
fedora-release-42-0.3.noarch
fedora-release-common-42-0.3.noarch
fedora-release-identity-basic-42-0.3.noarch
fedora-repos-42-0.2.noarch
fedora-repos-rawhide-42-0.2.noarch
file-5.45-7.fc42.s390x
file-libs-5.45-7.fc42.s390x
filesystem-3.18-29.fc42.s390x
findutils-4.10.0-4.fc41.s390x
fonts-srpm-macros-2.0.5-17.fc41.noarch
forge-srpm-macros-0.3.2-1.fc41.noarch
fpc-srpm-macros-1.3-13.fc41.noarch
gawk-5.3.0-4.fc41.s390x
gdb-minimal-15.1-2.fc42.s390x
gdbm-1.23-7.fc41.s390x
gdbm-libs-1.23-7.fc41.s390x
ghc-srpm-macros-1.9.2-1.fc42.noarch
glibc-2.40.9000-5.fc42.s390x
glibc-common-2.40.9000-5.fc42.s390x
glibc-gconv-extra-2.40.9000-5.fc42.s390x
glibc-minimal-langpack-2.40.9000-5.fc42.s390x
gmp-6.3.0-2.fc41.s390x
gnat-srpm-macros-6-6.fc41.noarch
go-srpm-macros-3.6.0-3.fc41.noarch
gpg-pubkey-105ef944-65ca83d1
gpg-pubkey-31645531-66b6dccf
gpg-pubkey-e99d6ad1-64d2612c
grep-3.11-9.fc41.s390x
gzip-1.13-2.fc41.s390x
info-7.1.1-1.fc42.s390x
jansson-2.13.1-10.fc41.s390x
kernel-srpm-macros-1.0-24.fc41.noarch
keyutils-libs-1.6.3-4.fc41.s390x
krb5-libs-1.21.3-2.fc41.s390x
libacl-2.3.2-2.fc41.s390x
libarchive-3.7.6-1.fc42.s390x
libattr-2.5.2-4.fc41.s390x
libblkid-2.40.2-8.fc42.s390x
libbrotli-1.1.0-5.fc41.s390x
libcap-2.70-4.fc41.s390x
libcap-ng-0.8.5-3.fc41.s390x
libcom_err-1.47.1-3.fc41.s390x
libcurl-8.10.1-2.fc42.s390x
libeconf-0.6.2-3.fc41.s390x
libevent-2.1.12-14.fc41.s390x
libfdisk-2.40.2-8.fc42.s390x
libffi-3.4.6-3.fc42.s390x
libgcc-14.2.1-3.fc42.s390x
libgomp-14.2.1-3.fc42.s390x
libidn2-2.3.7-2.fc41.s390x
libmount-2.40.2-8.fc42.s390x
libnghttp2-1.63.0-1.fc42.s390x
libnsl2-2.0.1-2.fc41.s390x
libpkgconf-2.3.0-1.fc42.s390x
libpsl-0.21.5-4.fc41.s390x
libpwquality-1.4.5-11.fc41.s390x
libselinux-3.7-6.fc42.s390x
libsemanage-3.7-3.fc42.s390x
libsepol-3.7-3.fc42.s390x
libsmartcols-2.40.2-8.fc42.s390x
libssh-0.11.1-1.fc42.s390x
libssh-config-0.11.1-1.fc42.noarch
libstdc++-14.2.1-3.fc42.s390x
libtasn1-4.19.0-9.fc41.s390x
libtirpc-1.3.5-0.fc41.s390x
libtool-ltdl-2.4.7-12.fc41.s390x
libunistring-1.1-8.fc41.s390x
libuuid-2.40.2-8.fc42.s390x
libverto-0.3.2-9.fc41.s390x
libxcrypt-4.4.36-7.fc41.s390x
libxml2-2.12.8-2.fc41.s390x
libzstd-1.5.6-2.fc41.s390x
lua-libs-5.4.6-6.fc41.s390x
lua-srpm-macros-1-14.fc41.noarch
lz4-libs-1.10.0-1.fc41.s390x
mpfr-4.2.1-5.fc41.s390x
ncurses-base-6.5-2.20240629.fc41.noarch
ncurses-libs-6.5-2.20240629.fc41.s390x
ocaml-srpm-macros-10-3.fc41.noarch
openblas-srpm-macros-2-18.fc41.noarch
openldap-2.6.8-5.fc41.s390x
openssl-libs-3.2.2-8.fc42.s390x
p11-kit-0.25.5-3.fc41.s390x
p11-kit-trust-0.25.5-3.fc41.s390x
package-notes-srpm-macros-0.5-12.fc41.noarch
pam-1.6.1-6.fc42.s390x
pam-libs-1.6.1-6.fc42.s390x
patch-2.7.6-25.fc41.s390x
pcre2-10.44-1.fc41.1.s390x
pcre2-syntax-10.44-1.fc41.1.noarch
perl-srpm-macros-1-56.fc41.noarch
pkgconf-2.3.0-1.fc42.s390x
pkgconf-m4-2.3.0-1.fc42.noarch
pkgconf-pkg-config-2.3.0-1.fc42.s390x
popt-1.19-7.fc41.s390x
publicsuffix-list-dafsa-20240107-4.fc41.noarch
pyproject-srpm-macros-1.15.0-1.fc42.noarch
python-srpm-macros-3.13-3.fc41.noarch
qt5-srpm-macros-5.15.15-1.fc42.noarch
qt6-srpm-macros-6.7.2-3.fc41.noarch
readline-8.2-11.fc42.s390x
redhat-rpm-config-296-1.fc42.noarch
rpm-4.19.94-1.fc42.s390x
rpm-build-4.19.94-1.fc42.s390x
rpm-build-libs-4.19.94-1.fc42.s390x
rpm-libs-4.19.94-1.fc42.s390x
rpm-sequoia-1.7.0-2.fc41.s390x
rust-srpm-macros-26.3-3.fc42.noarch
sed-4.9-3.fc41.s390x
setup-2.15.0-5.fc41.noarch
shadow-utils-4.16.0-4.fc42.s390x
sqlite-libs-3.46.0-4.fc41.s390x
systemd-libs-256.5-1.fc42.s390x
tar-1.35-4.fc41.s390x
unzip-6.0-64.fc41.s390x
util-linux-2.40.2-8.fc42.s390x
util-linux-core-2.40.2-8.fc42.s390x
which-2.21-42.fc41.s390x
xxhash-libs-0.8.2-3.fc41.s390x
xz-5.6.2-2.fc41.s390x
xz-libs-5.6.2-2.fc41.s390x
zig-srpm-macros-1-3.fc41.noarch
zip-3.0-41.fc41.s390x
zlib-ng-compat-2.2.2-1.fc42.s390x
zstd-1.5.6-2.fc41.s390x
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: s390x
Building for target s390x
setting SOURCE_DATE_EPOCH=1725235200
Wrote: /builddir/build/SRPMS/htslib-1.15.1-7.fc42.src.rpm
Finish: rpmbuild -bs
cp: preserving permissions for ‘/var/lib/copr-rpmbuild/results/chroot_scan/var/lib/mock/fedora-rawhide-s390x-1727385887.696194/root/var/log’: No such file or directory
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-s390x-1727385887.696194/root/var/log/dnf5.log
Finish: buildsrpm
INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-p3ydkaji/htslib/htslib.spec) Config(child) 0 minutes 45 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/htslib-1.15.1-7.fc42.src.rpm)  Config(fedora-rawhide-s390x)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-s390x-bootstrap-1727385887.696194/root.
INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-s390x-bootstrap-1727385887.696194/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-s390x-1727385887.696194/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-4.19.94-1.fc42.s390x
  rpm-sequoia-1.7.0-2.fc41.s390x
  dnf5-5.2.6.2-1.fc42.s390x
  dnf5-plugins-5.2.6.2-1.fc42.s390x
Finish: chroot init
Start: build phase for htslib-1.15.1-7.fc42.src.rpm
Start: build setup for htslib-1.15.1-7.fc42.src.rpm
Building target platforms: s390x
Building for target s390x
setting SOURCE_DATE_EPOCH=1725235200
Wrote: /builddir/build/SRPMS/htslib-1.15.1-7.fc42.src.rpm
Updating and loading repositories:
 fedora                                 100% |  35.7 KiB/s |   5.8 KiB |  00m00s
 Copr repository                        100% |  47.9 KiB/s |   1.5 KiB |  00m00s
Repositories loaded.
Package                 Arch   Version              Repository      Size
Installing:
 bzip2-devel            s390x  1.0.8-19.fc41        fedora     309.8 KiB
 gcc                    s390x  14.2.1-3.fc42        fedora      76.7 MiB
 libcurl-devel          s390x  8.10.1-2.fc42        copr_base    1.3 MiB
 make                   s390x  1:4.4.1-8.fc41       fedora       1.9 MiB
 openssl-devel          s390x  1:3.2.2-8.fc42       fedora       4.3 MiB
 perl-Data-Dumper       s390x  2.189-512.fc41       fedora     115.5 KiB
 perl-FindBin           noarch 1.54-511.fc41        fedora       6.7 KiB
 perl-Getopt-Long       noarch 1:2.58-2.fc41        fedora     144.5 KiB
 perl-interpreter       s390x  4:5.40.0-511.fc41    fedora     122.1 KiB
 perl-lib               s390x  0.65-511.fc41        fedora       8.5 KiB
 xz-devel               s390x  1:5.6.2-2.fc41       fedora     255.6 KiB
 zlib-ng-compat-devel   s390x  2.2.2-1.fc42         copr_base  106.8 KiB
Installing dependencies:
 annobin-docs           noarch 12.70-1.fc42         fedora      97.7 KiB
 annobin-plugin-gcc     s390x  12.70-1.fc42         fedora     985.3 KiB
 brotli                 s390x  1.1.0-5.fc41         fedora      35.6 KiB
 brotli-devel           s390x  1.1.0-5.fc41         fedora      65.6 KiB
 cmake-filesystem       s390x  3.28.3-7.fc41        fedora       0.0   B
 cpp                    s390x  14.2.1-3.fc42        fedora      25.5 MiB
 gcc-plugin-annobin     s390x  14.2.1-3.fc42        fedora      60.8 KiB
 glibc-devel            s390x  2.40.9000-5.fc42     copr_base  467.6 KiB
 glibc-headers-s390     noarch 2.40.9000-5.fc42     copr_base    2.2 MiB
 groff-base             s390x  1.23.0-7.fc41        fedora       4.3 MiB
 kernel-headers         s390x  6.11.0-63.fc42       fedora       6.4 MiB
 libasan                s390x  14.2.1-3.fc42        fedora       1.6 MiB
 libatomic              s390x  14.2.1-3.fc42        fedora      32.3 KiB
 libidn2-devel          s390x  2.3.7-2.fc41         fedora     252.1 KiB
 libmpc                 s390x  1.3.1-6.fc41         fedora     164.5 KiB
 libnghttp2-devel       s390x  1.63.0-1.fc42        fedora     295.3 KiB
 libpsl-devel           s390x  0.21.5-4.fc41        fedora     110.3 KiB
 libssh-devel           s390x  0.11.1-1.fc42        fedora     177.8 KiB
 libubsan               s390x  14.2.1-3.fc42        fedora     491.2 KiB
 libxcrypt-devel        s390x  4.4.36-7.fc41        fedora      30.3 KiB
 ncurses                s390x  6.5-2.20240629.fc41  fedora     641.5 KiB
 perl-AutoLoader        noarch 5.74-511.fc41        fedora      20.5 KiB
 perl-B                 s390x  1.89-511.fc41        fedora     517.8 KiB
 perl-Carp              noarch 1.54-511.fc41        fedora      46.6 KiB
 perl-Class-Struct      noarch 0.68-511.fc41        fedora      25.4 KiB
 perl-Digest            noarch 1.20-511.fc41        fedora      35.3 KiB
 perl-Digest-MD5        s390x  2.59-5.fc41          fedora      59.6 KiB
 perl-DynaLoader        s390x  1.56-511.fc41        fedora      32.1 KiB
 perl-Encode            s390x  4:3.21-511.fc41      fedora       9.6 MiB
 perl-Errno             s390x  1.38-511.fc41        fedora       8.4 KiB
 perl-Exporter          noarch 5.78-511.fc41        fedora      54.3 KiB
 perl-Fcntl             s390x  1.18-511.fc41        fedora      56.8 KiB
 perl-File-Basename     noarch 2.86-511.fc41        fedora      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 1.14-511.fc41        fedora      12.5 KiB
 perl-FileHandle        noarch 2.05-511.fc41        fedora       9.3 KiB
 perl-Getopt-Std        noarch 1.14-511.fc41        fedora      11.2 KiB
 perl-HTTP-Tiny         noarch 0.088-512.fc41       fedora     152.2 KiB
 perl-IO                s390x  1.55-511.fc41        fedora     150.8 KiB
 perl-IO-Socket-IP      noarch 0.42-512.fc41        fedora      98.7 KiB
 perl-IO-Socket-SSL     noarch 2.089-1.fc42         fedora     703.3 KiB
 perl-IPC-Open3         noarch 1.22-511.fc41        fedora      22.5 KiB
 perl-MIME-Base32       noarch 1.303-21.fc41        fedora      30.7 KiB
 perl-MIME-Base64       s390x  3.16-511.fc41        fedora      45.9 KiB
 perl-Mozilla-CA        noarch 20240730-1.fc41      fedora       9.8 KiB
 perl-Net-SSLeay        s390x  1.94-7.fc41          fedora       1.4 MiB
 perl-POSIX             s390x  2.20-511.fc41        fedora     250.9 KiB
 perl-PathTools         s390x  3.91-511.fc41        fedora     179.8 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 s390x  5:1.66-1.fc42        fedora     150.4 KiB
 perl-SelectSaver       noarch 1.02-511.fc41        fedora       2.2 KiB
 perl-Socket            s390x  4:2.038-511.fc41     fedora     127.8 KiB
 perl-Storable          s390x  1:3.32-511.fc41      fedora     232.2 KiB
 perl-Symbol            noarch 1.09-511.fc41        fedora       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 5.29-1.fc42          fedora     251.9 KiB
 perl-base              noarch 2.27-511.fc41        fedora      12.5 KiB
 perl-constant          noarch 1.33-512.fc41        fedora      26.2 KiB
 perl-if                noarch 0.61.000-511.fc41    fedora       5.8 KiB
 perl-libnet            noarch 3.15-512.fc41        fedora     289.4 KiB
 perl-libs              s390x  4:5.40.0-511.fc41    fedora      10.2 MiB
 perl-locale            noarch 1.12-511.fc41        fedora       6.5 KiB
 perl-mro               s390x  1.29-511.fc41        fedora      45.4 KiB
 perl-overload          noarch 1.37-511.fc41        fedora      71.5 KiB
 perl-overloading       noarch 0.02-511.fc41        fedora       4.8 KiB
 perl-parent            noarch 1:0.242-1.fc42       fedora      10.0 KiB
 perl-podlators         noarch 1:6.0.2-2.fc41       fedora     317.5 KiB
 perl-vars              noarch 1.05-511.fc41        fedora       3.9 KiB
 publicsuffix-list      noarch 20240107-4.fc41      fedora     318.0 KiB

Transaction Summary:
 Installing:        89 packages

Total size of inbound packages is 58 MiB. Need to download 58 MiB.
After this operation, 156 MiB extra will be used (install 156 MiB, remove 0 B).
[ 1/89] bzip2-devel-0:1.0.8-19.fc41.s39 100% | 559.2 KiB/s | 213.6 KiB |  00m00s
[ 2/89] make-1:4.4.1-8.fc41.s390x       100% |   1.2 MiB/s | 604.5 KiB |  00m00s
[ 3/89] perl-Data-Dumper-0:2.189-512.fc 100% | 901.4 KiB/s |  57.7 KiB |  00m00s
[ 4/89] perl-FindBin-0:1.54-511.fc41.no 100% | 232.5 KiB/s |  14.2 KiB |  00m00s
[ 5/89] perl-Getopt-Long-1:2.58-2.fc41. 100% | 998.3 KiB/s |  63.9 KiB |  00m00s
[ 6/89] openssl-devel-1:3.2.2-8.fc42.s3 100% |   8.8 MiB/s |   2.8 MiB |  00m00s
[ 7/89] perl-lib-0:0.65-511.fc41.s390x  100% | 242.9 KiB/s |  14.8 KiB |  00m00s
[ 8/89] perl-interpreter-4:5.40.0-511.f 100% |   1.1 MiB/s |  72.1 KiB |  00m00s
[ 9/89] xz-devel-1:5.6.2-2.fc41.s390x   100% | 991.3 KiB/s |  66.4 KiB |  00m00s
[10/89] zlib-ng-compat-devel-0:2.2.2-1. 100% |   1.7 MiB/s |  38.6 KiB |  00m00s
[11/89] libcurl-devel-0:8.10.1-2.fc42.s 100% |   9.9 MiB/s | 779.6 KiB |  00m00s
[12/89] libasan-0:14.2.1-3.fc42.s390x   100% |   5.3 MiB/s | 534.1 KiB |  00m00s
[13/89] libatomic-0:14.2.1-3.fc42.s390x 100% | 656.8 KiB/s |  41.4 KiB |  00m00s
[14/89] libmpc-0:1.3.1-6.fc41.s390x     100% |   1.1 MiB/s |  73.3 KiB |  00m00s
[15/89] libubsan-0:14.2.1-3.fc42.s390x  100% |   3.0 MiB/s | 233.6 KiB |  00m00s
[16/89] perl-B-0:1.89-511.fc41.s390x    100% |   2.5 MiB/s | 178.4 KiB |  00m00s
[17/89] gcc-0:14.2.1-3.fc42.s390x       100% |  23.9 MiB/s |  30.4 MiB |  00m01s
[18/89] cpp-0:14.2.1-3.fc42.s390x       100% |  20.9 MiB/s |   9.6 MiB |  00m00s
[19/89] perl-Carp-0:1.54-511.fc41.noarc 100% | 451.4 KiB/s |  28.9 KiB |  00m00s
[20/89] perl-Exporter-0:5.78-511.fc41.n 100% | 515.2 KiB/s |  30.9 KiB |  00m00s
[21/89] perl-constant-0:1.33-512.fc41.n 100% | 377.6 KiB/s |  23.0 KiB |  00m00s
[22/89] perl-Scalar-List-Utils-5:1.66-1 100% |   1.2 MiB/s |  73.4 KiB |  00m00s
[23/89] perl-File-Basename-0:2.86-511.f 100% | 280.7 KiB/s |  17.1 KiB |  00m00s
[24/89] perl-PathTools-0:3.91-511.fc41. 100% |   1.3 MiB/s |  87.0 KiB |  00m00s
[25/89] perl-Pod-Usage-4:2.03-511.fc41. 100% | 645.3 KiB/s |  40.0 KiB |  00m00s
[26/89] perl-Text-ParseWords-0:3.31-511 100% | 271.7 KiB/s |  16.6 KiB |  00m00s
[27/89] perl-libs-4:5.40.0-511.fc41.s39 100% |  13.4 MiB/s |   2.5 MiB |  00m00s
[28/89] perl-base-0:2.27-511.fc41.noarc 100% | 265.1 KiB/s |  16.2 KiB |  00m00s
[29/89] perl-overload-0:1.37-511.fc41.n 100% | 745.8 KiB/s |  45.5 KiB |  00m00s
[30/89] brotli-devel-0:1.1.0-5.fc41.s39 100% | 556.0 KiB/s |  33.9 KiB |  00m00s
[31/89] libnghttp2-devel-0:1.63.0-1.fc4 100% | 911.1 KiB/s |  55.6 KiB |  00m00s
[32/89] libidn2-devel-0:2.3.7-2.fc41.s3 100% |   1.0 MiB/s |  70.7 KiB |  00m00s
[33/89] libpsl-devel-0:0.21.5-4.fc41.s3 100% | 552.9 KiB/s |  33.2 KiB |  00m00s
[34/89] libssh-devel-0:0.11.1-1.fc42.s3 100% | 679.3 KiB/s |  42.1 KiB |  00m00s
[35/89] cmake-filesystem-0:3.28.3-7.fc4 100% | 297.6 KiB/s |  18.2 KiB |  00m00s
[36/89] perl-if-0:0.61.000-511.fc41.noa 100% | 232.7 KiB/s |  14.0 KiB |  00m00s
[37/89] perl-overloading-0:0.02-511.fc4 100% | 204.2 KiB/s |  12.9 KiB |  00m00s
[38/89] perl-DynaLoader-0:1.56-511.fc41 100% | 418.0 KiB/s |  25.9 KiB |  00m00s
[39/89] perl-Encode-4:3.21-511.fc41.s39 100% |  20.5 MiB/s |   1.7 MiB |  00m00s
[40/89] perl-Errno-0:1.38-511.fc41.s390 100% | 227.9 KiB/s |  14.8 KiB |  00m00s
[41/89] perl-Pod-Perldoc-0:3.28.01-512. 100% |   1.3 MiB/s |  86.1 KiB |  00m00s
[42/89] perl-podlators-1:6.0.2-2.fc41.n 100% |   2.0 MiB/s | 128.8 KiB |  00m00s
[43/89] perl-mro-0:1.29-511.fc41.s390x  100% | 470.3 KiB/s |  29.6 KiB |  00m00s
[44/89] brotli-0:1.1.0-5.fc41.s390x     100% | 335.1 KiB/s |  20.4 KiB |  00m00s
[45/89] perl-Getopt-Std-0:1.14-511.fc41 100% | 256.5 KiB/s |  15.6 KiB |  00m00s
[46/89] publicsuffix-list-0:20240107-4. 100% |   1.4 MiB/s |  87.5 KiB |  00m00s
[47/89] perl-vars-0:1.05-511.fc41.noarc 100% | 209.0 KiB/s |  13.0 KiB |  00m00s
[48/89] perl-MIME-Base64-0:3.16-511.fc4 100% | 498.6 KiB/s |  30.4 KiB |  00m00s
[49/89] perl-parent-1:0.242-1.fc42.noar 100% | 245.2 KiB/s |  15.0 KiB |  00m00s
[50/89] perl-Storable-1:3.32-511.fc41.s 100% |   1.5 MiB/s |  99.7 KiB |  00m00s
[51/89] perl-Fcntl-0:1.18-511.fc41.s390 100% | 485.2 KiB/s |  30.1 KiB |  00m00s
[52/89] perl-File-Temp-1:0.231.100-511. 100% | 798.9 KiB/s |  59.1 KiB |  00m00s
[53/89] groff-base-0:1.23.0-7.fc41.s390 100% |  12.8 MiB/s |   1.2 MiB |  00m00s
[54/89] perl-HTTP-Tiny-0:0.088-512.fc41 100% | 845.7 KiB/s |  55.8 KiB |  00m00s
[55/89] perl-IO-0:1.55-511.fc41.s390x   100% | 938.9 KiB/s |  81.7 KiB |  00m00s
[56/89] perl-IPC-Open3-0:1.22-511.fc41. 100% | 259.8 KiB/s |  21.8 KiB |  00m00s
[57/89] perl-Pod-Simple-1:3.45-511.fc41 100% |   2.9 MiB/s | 219.0 KiB |  00m00s
[58/89] perl-Symbol-0:1.09-511.fc41.noa 100% | 228.3 KiB/s |  14.2 KiB |  00m00s
[59/89] perl-POSIX-0:2.20-511.fc41.s390 100% |   1.6 MiB/s |  98.6 KiB |  00m00s
[60/89] perl-Term-ANSIColor-0:5.01-512. 100% | 757.0 KiB/s |  47.7 KiB |  00m00s
[61/89] perl-Term-Cap-0:1.18-511.fc41.n 100% | 361.8 KiB/s |  22.1 KiB |  00m00s
[62/89] perl-File-Path-0:2.18-511.fc41. 100% | 587.7 KiB/s |  35.3 KiB |  00m00s
[63/89] perl-IO-Socket-SSL-0:2.089-1.fc 100% |   3.0 MiB/s | 231.2 KiB |  00m00s
[64/89] perl-Mozilla-CA-0:20240730-1.fc 100% | 233.7 KiB/s |  14.3 KiB |  00m00s
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--------------------------------------------------------------------------------
[89/89] Total                           100% |  19.0 MiB/s |  58.0 MiB |  00m03s
Running transaction
[ 1/91] Verify package files            100% | 468.0   B/s |  89.0   B |  00m00s
[ 2/91] Prepare transaction             100% |   1.2 KiB/s |  89.0   B |  00m00s
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[10/91] Installing kernel-headers-0:6.1 100% | 167.3 MiB/s |   6.5 MiB |  00m00s
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[13/91] Installing ncurses-0:6.5-2.2024 100% |  70.3 MiB/s | 648.1 KiB |  00m00s
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[29/91] Installing perl-Pod-Escapes-1:1 100% |   0.0   B/s |  25.9 KiB |  00m00s
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[31/91] Installing perl-locale-0:1.12-5 100% |   0.0   B/s |   6.9 KiB |  00m00s
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[36/91] Installing perl-POSIX-0:2.20-51 100% | 246.3 MiB/s | 252.2 KiB |  00m00s
[37/91] Installing perl-File-Temp-1:0.2 100% | 160.2 MiB/s | 164.1 KiB |  00m00s
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[48/91] Installing perl-Text-ParseWords 100% |   0.0   B/s |  14.6 KiB |  00m00s
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[55/91] Installing perl-Scalar-List-Uti 100% | 150.1 MiB/s | 153.7 KiB |  00m00s
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[90/91] Installing xz-devel-1:5.6.2-2.f 100% | 253.3 MiB/s | 259.4 KiB |  00m00s
warning: posix.fork(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.wait(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
warning: posix.exec(): .fork(), .exec(), .wait() and .redirect2null() are deprecated, use rpm.spawn() or rpm.execute() instead
[91/91] Installing bzip2-devel-0:1.0.8- 100% |   2.9 MiB/s | 310.7 KiB |  00m00s
Warning: skipped PGP checks for 4 packages from repository: copr_base
Complete!
Finish: build setup for htslib-1.15.1-7.fc42.src.rpm
Start: rpmbuild htslib-1.15.1-7.fc42.src.rpm
Building target platforms: s390x
Building for target s390x
setting SOURCE_DATE_EPOCH=1725235200
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.U1k1Ej
+ umask 022
+ cd /builddir/build/BUILD/htslib-1.15.1-build
+ test -d /builddir/build/BUILD/htslib-1.15.1-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/htslib-1.15.1-build
+ /usr/bin/rm -rf /builddir/build/BUILD/htslib-1.15.1-build
+ /usr/bin/mkdir -p /builddir/build/BUILD/htslib-1.15.1-build
+ /usr/bin/mkdir -p /builddir/build/BUILD/htslib-1.15.1-build/SPECPARTS
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.Ui2rpe
+ umask 022
+ cd /builddir/build/BUILD/htslib-1.15.1-build
+ cd /builddir/build/BUILD/htslib-1.15.1-build
+ rm -rf htslib-1.15.1
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/htslib-1.15.1.tar.bz2
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd htslib-1.15.1
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
Patch #0 (htslib-1.15.1-gcc12.patch):
+ echo 'Patch #0 (htslib-1.15.1-gcc12.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0
patching file htscodecs/htscodecs/rANS_word.h
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.nkAac2
+ umask 022
+ cd /builddir/build/BUILD/htslib-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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -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,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 htslib-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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -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,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
--- ./configure.backup	2022-04-07 15:42:52.000000000 +0000
+++ ./configure	2024-09-26 21:25:44.668291932 +0000
@@ -1697,7 +1697,7 @@
 #ifdef __cplusplus
 extern "C"
 #endif
-char $2 ();
+__attribute__ ((used)) char $2 ();
 /* The GNU C library defines this for functions which it implements
     to always fail with ENOSYS.  Some functions are actually named
     something starting with __ and the normal name is an alias.  */
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ '[' 1 = 1 ']'
+++ dirname ./configure
++ find . -name config.guess -o -name config.sub
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']'
++ find . -name ltmain.sh
++ grep -q runstatedir=DIR ./configure
++ echo --runstatedir=/run
+ ./configure --build=s390x-redhat-linux --host=s390x-redhat-linux --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --runstatedir=/run --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' --prefix=/usr --libdir=/usr/lib64 --enable-plugins '--with-plugin-path=/usr/local/libexec/htslib:$(plugindir)' --enable-gcs --enable-libcurl --enable-s3
configure: WARNING: unrecognized options: --disable-dependency-tracking
checking for s390x-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 s390x-redhat-linux-ranlib... no
checking for ranlib... ranlib
checking for grep that handles long lines and -e... /usr/bin/grep
checking for C compiler warning flags... -Wall
checking for s390x-redhat-linux-pkg-config... no
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking shared library type for s390x-redhat-linux... plain .so
checking whether the compiler accepts -fvisibility=hidden... yes
checking how to run the C preprocessor... gcc -E
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for stdlib.h... (cached) yes
checking for unistd.h... (cached) yes
checking for sys/param.h... yes
checking for getpagesize... yes
checking for working mmap... yes
checking for gmtime_r... yes
checking for fsync... yes
checking for drand48... yes
checking for srand48_deterministic... no
checking whether fdatasync is declared... yes
checking for fdatasync... yes
checking for library containing dlsym... none required
checking whether the compiler accepts -rdynamic... yes
checking for library containing log... -lm
checking for zlib.h... yes
checking for inflate in -lz... yes
checking for library containing recv... none required
checking for bzlib.h... yes
checking for BZ2_bzBuffToBuffCompress in -lbz2... yes
checking for lzma.h... yes
checking for lzma_easy_buffer_encode in -llzma... yes
checking whether htscodecs files are present... yes
checking for libdeflate.h... no
checking for libdeflate_deflate_compress in -ldeflate... no
checking for curl/curl.h... yes
checking for curl_easy_pause in -lcurl... yes
checking for CCHmac... no
checking for library containing HMAC... -lcrypto
checking for library containing regcomp... none required
checking whether PTHREAD_MUTEX_RECURSIVE is declared... yes
configure: creating ./config.status
config.status: creating config.mk
config.status: creating htslib.pc.tmp
config.status: creating config.h
config.status: linking htscodecs_bundled.mk to htscodecs.mk
configure: WARNING: unrecognized options: --disable-dependency-tracking
+ /usr/bin/make -O -j2 V=1 VERBOSE=1
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o kfunc.o kfunc.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o kstring.o kstring.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o bcf_sr_sort.o bcf_sr_sort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o errmod.o errmod.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o bgzf.o bgzf.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o hfile.o hfile.c
echo '#define HTS_VERSION_TEXT "1.15.1"' > version.h
echo '#define HTS_CC "gcc"' > config_vars.h
echo '#define HTS_CPPFLAGS ""' >> config_vars.h
echo '#define HTS_CFLAGS "-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden"' >> config_vars.h
echo '#define HTS_LDFLAGS "-Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic"' >> config_vars.h
echo '#define HTS_LIBS "-llzma -lbz2 -lz -lm "' >> config_vars.h
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o hts_expr.o hts_expr.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o hts_os.o hts_os.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o md5.o md5.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o multipart.o multipart.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o header.o header.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o probaln.o probaln.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o realn.o realn.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o region.o region.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o regidx.o regidx.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o synced_bcf_reader.o synced_bcf_reader.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o vcf_sweep.o vcf_sweep.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o tbx.o tbx.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o textutils.o textutils.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o thread_pool.o thread_pool.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o sam.o sam.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o vcfutils.o vcfutils.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o vcf.o vcf.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/cram_codecs.o cram/cram_codecs.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/cram_decode.o cram/cram_decode.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/cram_external.o cram/cram_external.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/cram_encode.o cram/cram_encode.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/cram_index.o cram/cram_index.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/cram_stats.o cram/cram_stats.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/mFILE.o cram/mFILE.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/open_trace_file.o cram/open_trace_file.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/pooled_alloc.o cram/pooled_alloc.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/string_alloc.o cram/string_alloc.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/arith_dynamic.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o cram/cram_io.o cram/cram_io.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/htscodecs.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htscodecs/htscodecs/pack.o htscodecs/htscodecs/pack.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/fqzcomp_qual.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rANS_static.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htscodecs/htscodecs/rle.o htscodecs/htscodecs/rle.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static4x16pr.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -DPLUGINPATH=\"/usr/local/libexec/htslib:/usr/libexec/htslib\" -c -o plugin.o plugin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o kfunc.pico kfunc.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o kstring.pico kstring.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/tokenise_name3.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o bcf_sr_sort.pico bcf_sr_sort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o bgzf.pico bgzf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o errmod.pico errmod.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o faidx.pico faidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o hfile.pico hfile.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o header.pico header.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o hts_expr.pico hts_expr.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o hts_os.pico hts_os.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o md5.pico md5.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o multipart.pico multipart.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o probaln.pico probaln.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o realn.pico realn.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o regidx.pico regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o region.pico region.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o hts.pico hts.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o synced_bcf_reader.pico synced_bcf_reader.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o vcf_sweep.pico vcf_sweep.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o tbx.pico tbx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o textutils.pico textutils.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o thread_pool.pico thread_pool.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o sam.pico sam.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o vcfutils.pico vcfutils.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o vcf.pico vcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/cram_codecs.pico cram/cram_codecs.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/cram_decode.pico cram/cram_decode.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/cram_external.pico cram/cram_external.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/cram_index.pico cram/cram_index.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/cram_encode.pico cram/cram_encode.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/cram_stats.pico cram/cram_stats.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/mFILE.pico cram/mFILE.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/open_trace_file.pico cram/open_trace_file.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/pooled_alloc.pico cram/pooled_alloc.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/string_alloc.pico cram/string_alloc.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o htscodecs/htscodecs/arith_dynamic.pico htscodecs/htscodecs/arith_dynamic.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o cram/cram_io.pico cram/cram_io.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o htscodecs/htscodecs/htscodecs.pico htscodecs/htscodecs/htscodecs.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o htscodecs/htscodecs/pack.pico htscodecs/htscodecs/pack.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o htscodecs/htscodecs/fqzcomp_qual.pico htscodecs/htscodecs/fqzcomp_qual.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o htscodecs/htscodecs/rANS_static.pico htscodecs/htscodecs/rANS_static.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o htscodecs/htscodecs/rle.pico htscodecs/htscodecs/rle.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o htscodecs/htscodecs/rANS_static4x16pr.pico htscodecs/htscodecs/rANS_static4x16pr.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -DPLUGINPATH=\"/usr/local/libexec/htslib:/usr/libexec/htslib\" -fpic -c -o plugin.pico plugin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o bgzip.o bgzip.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o htsfile.o htsfile.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o htscodecs/htscodecs/tokenise_name3.pico htscodecs/htscodecs/tokenise_name3.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o tabix.o tabix.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o hfile_gcs.pico hfile_gcs.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o hfile_libcurl.pico hfile_libcurl.c
hfile_libcurl.c: In function ‘libcurl_open’:
hfile_libcurl.c:1335:9: warning: ‘CURLINFO_CONTENT_LENGTH_DOWNLOAD’ is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations]
 1335 |         if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD,
      |         ^~
In file included from hfile_libcurl.c:47:
/usr/include/curl/curl.h:2892:3: note: declared here
 2892 |   CURLINFO_CONTENT_LENGTH_DOWNLOAD
      |   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o hfile_s3_write.pico hfile_s3_write.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -fpic -c -o hfile_s3.pico hfile_s3.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/fieldarith.o test/fieldarith.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/hfile.o test/hfile.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/hts_endian.o test/hts_endian.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/pileup.o test/pileup.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/pileup_mod.o test/pileup_mod.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/plugins-dlhts.o test/plugins-dlhts.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_bgzf.o test/test_bgzf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_expr.o test/test_expr.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_kfunc.o test/test_kfunc.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_kstring.o test/test_kstring.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_mod.o test/test_mod.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/sam.o test/sam.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_realn.o test/test_realn.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test-regidx.o test/test-regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_str2int.o test/test_str2int.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_index.o test/test_index.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_view.o test/test_view.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test-vcf-sweep.o test/test-vcf-sweep.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test-vcf-api.o test/test-vcf-api.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test-bcf-sr.o test/test-bcf-sr.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/fuzz/hts_open_fuzzer.o test/fuzz/hts_open_fuzzer.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test-bcf-translate.o test/test-bcf-translate.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test_introspection.o test/test_introspection.c
sed -n '/^static_libs=/s/[^=]*=/HTSLIB_static_LIBS = /p;/^static_ldflags=/s/[^=]*=/HTSLIB_static_LDFLAGS = /p' htslib.pc.tmp > htslib_static.mk
sed -e 's#@-includedir@#'`pwd`'#g;s#@-libdir@#'`pwd`'#g' htslib.pc.tmp > htslib-uninstalled.pc
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o test/test-parse-reg.o test/test-parse-reg.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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I.  -c -o hts.o hts.c
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/hts_endian test/hts_endian.o -llzma -lbz2 -lz -lm 
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/plugins-dlhts test/plugins-dlhts.o -llzma -lbz2 -lz -lm 
ar -rc libhts.a kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o  plugin.o
ranlib libhts.a
gcc -shared -Wl,-soname,libhts.so.3 -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o libhts.so kfunc.pico kstring.pico bcf_sr_sort.pico bgzf.pico errmod.pico faidx.pico header.pico hfile.pico hts.pico hts_expr.pico hts_os.pico md5.pico multipart.pico probaln.pico realn.pico regidx.pico region.pico sam.pico synced_bcf_reader.pico vcf_sweep.pico tbx.pico textutils.pico thread_pool.pico vcf.pico vcfutils.pico cram/cram_codecs.pico cram/cram_decode.pico cram/cram_encode.pico cram/cram_external.pico cram/cram_index.pico cram/cram_io.pico cram/cram_stats.pico cram/mFILE.pico cram/open_trace_file.pico cram/pooled_alloc.pico cram/string_alloc.pico htscodecs/htscodecs/arith_dynamic.pico htscodecs/htscodecs/fqzcomp_qual.pico htscodecs/htscodecs/htscodecs.pico htscodecs/htscodecs/pack.pico htscodecs/htscodecs/rANS_static4x16pr.pico htscodecs/htscodecs/rANS_static.pico htscodecs/htscodecs/rle.pico htscodecs/htscodecs/tokenise_name3.pico plugin.pico -llzma -lbz2 -lz -lm  -lpthread
ln -sf libhts.so libhts.so.3
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o bgzip bgzip.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o htsfile htsfile.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -shared -Wl,-E -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o hfile_libcurl.so hfile_libcurl.pico libhts.so -llzma -lbz2 -lz -lm  -lcurl -lpthread
gcc -shared -Wl,-E -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o hfile_gcs.so hfile_gcs.pico libhts.so -llzma -lbz2 -lz -lm  -lpthread
gcc -shared -Wl,-E -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o hfile_s3.so hfile_s3.pico libhts.so -llzma -lbz2 -lz -lm  -lcrypto -lpthread
gcc -shared -Wl,-E -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o hfile_s3_write.so hfile_s3_write.pico libhts.so -llzma -lbz2 -lz -lm  -lcrypto -lcurl -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o tabix tabix.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/fieldarith test/fieldarith.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/hfile test/hfile.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/pileup test/pileup.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/pileup_mod test/pileup_mod.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/sam test/sam.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_expr test/test_expr.o libhts.a -lz -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_kfunc test/test_kfunc.o libhts.a -lz -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_kstring test/test_kstring.o libhts.a -lz -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_bgzf test/test_bgzf.o libhts.a -lz -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_mod test/test_mod.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_realn test/test_realn.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test-regidx test/test-regidx.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_str2int test/test_str2int.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_view test/test_view.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_index test/test_index.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test-vcf-api test/test-vcf-api.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test-vcf-sweep test/test-vcf-sweep.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test-bcf-sr test/test-bcf-sr.o libhts.a -lz -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test-bcf-translate test/test-bcf-translate.o libhts.a -lz -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test-parse-reg test/test-parse-reg.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o test/test_introspection test/test_introspection.o libhts.a -llzma -lbz2 -lz -lm  -lpthread
+ sed -i -E '/^(Libs|Requires)\.private:/d' htslib.pc.tmp
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.vp9hhG
+ umask 022
+ cd /builddir/build/BUILD/htslib-1.15.1-build
+ '[' /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT '!=' / ']'
+ rm -rf /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT
++ dirname /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT
+ mkdir -p /builddir/build/BUILD/htslib-1.15.1-build
+ mkdir /builddir/build/BUILD/htslib-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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -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,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 htslib-1.15.1
+ /usr/bin/make install DESTDIR=/builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT 'INSTALL=/usr/bin/install -p'
mkdir -p -m 755 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/bin /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/include /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/include/htslib /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/man/man1 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/man/man5 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/man/man7 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64/pkgconfig
if test -n "/usr/libexec/htslib"; then mkdir -p -m 755 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/libexec/htslib; fi
/usr/bin/install -p -m 644 libhts.so /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64/libhts.so.1.15.1
ln -sf libhts.so.1.15.1 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64/libhts.so
ln -sf libhts.so.1.15.1 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64/libhts.so.3
sed -e 's#@-includedir@#/usr/include#g;s#@-libdir@#/usr/lib64#g;s#@-PACKAGE_VERSION@#1.15.1#g' htslib.pc.tmp > /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64/pkgconfig/htslib.pc
chmod 644 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64/pkgconfig/htslib.pc
/usr/bin/install -p bgzip htsfile tabix /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/bin
if test -n "hfile_libcurl.so hfile_gcs.so hfile_s3.so hfile_s3_write.so"; then /usr/bin/install -p hfile_libcurl.so hfile_gcs.so hfile_s3.so hfile_s3_write.so /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/libexec/htslib; fi
/usr/bin/install -p -m 644 htslib/*.h /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/include/htslib
/usr/bin/install -p -m 644 libhts.a /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64/libhts.a
/usr/bin/install -p -m 644 bgzip.1 htsfile.1 tabix.1 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/man/man1
/usr/bin/install -p -m 644 faidx.5 sam.5 vcf.5 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/man/man5
/usr/bin/install -p -m 644 htslib-s3-plugin.7 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/man/man7
~/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/lib64 ~/build/BUILD/htslib-1.15.1-build/htslib-1.15.1
+ pushd /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT//usr/lib64
+ chmod 755 libhts.so.1.15.1
~/build/BUILD/htslib-1.15.1-build/htslib-1.15.1
+ popd
+ find /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT -name '*.la' -delete
+ rm -f /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT//usr/lib64/libhts.a
+ /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 1.15.1-7.fc42 --unique-debug-suffix -1.15.1-7.fc42.s390x --unique-debug-src-base htslib-1.15.1-7.fc42.s390x --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1
find-debuginfo: starting
Extracting debug info from 8 files
DWARF-compressing 8 files
sepdebugcrcfix: Updated 8 CRC32s, 0 CRC32s did match.
Creating .debug symlinks for symlinks to ELF files
Copying sources found by 'debugedit -l' to /usr/src/debug/htslib-1.15.1-7.fc42.s390x
5259 blocks
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
+ /usr/lib/rpm/brp-remove-la-files
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j2
+ /usr/lib/rpm/redhat/brp-python-hardlink
+ /usr/bin/add-determinism --brp -j2 /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT
Scanned 29 directories and 162 files,
               processed 0 inodes,
               0 modified (0 replaced + 0 rewritten),
               0 unsupported format, 0 errors
Reading /builddir/build/BUILD/htslib-1.15.1-build/SPECPARTS/rpm-debuginfo.specpart
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.cA6Emy
+ umask 022
+ cd /builddir/build/BUILD/htslib-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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -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,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 htslib-1.15.1
+ make test
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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/rANS_static_test.o htscodecs/tests/rANS_static_test.c
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o htscodecs/tests/rans4x8 htscodecs/tests/rANS_static_test.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o -llzma -lbz2 -lz -lm  -lm -lpthread
cd htscodecs/tests && srcdir=. && export srcdir && ./rans4x8.test
Testing rans4x8 -r -o0 on ./dat/q4	11674
Testing rans4x8 -r -o1 on ./dat/q4	10870
Testing rans4x8 -r -o0 on ./dat/q40+dir	50258
Testing rans4x8 -r -o1 on ./dat/q40+dir	50537
Testing rans4x8 -r -o0 on ./dat/q8	33099
Testing rans4x8 -r -o1 on ./dat/q8	31428
Testing rans4x8 -r -o0 on ./dat/qvar	32997
Testing rans4x8 -r -o1 on ./dat/qvar	32832
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/rANS_static4x16pr_test.o htscodecs/tests/rANS_static4x16pr_test.c
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o htscodecs/tests/rans4x16pr htscodecs/tests/rANS_static4x16pr_test.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o -llzma -lbz2 -lz -lm  -lm -lpthread
cd htscodecs/tests && srcdir=. && export srcdir && ./rans4x16.test
Testing rans4x16 -r -o0 on ./dat/q4	11660
Testing rans4x16 -r -o1 on ./dat/q4	10848
Testing rans4x16 -r -o64 on ./dat/q4	12878
Testing rans4x16 -r -o65 on ./dat/q4	10672
Testing rans4x16 -r -o128 on ./dat/q4	10902
Testing rans4x16 -r -o129 on ./dat/q4	10890
Testing rans4x16 -r -o192 on ./dat/q4	11225
Testing rans4x16 -r -o193 on ./dat/q4	10825
Testing rans4x16 -r -o8 on ./dat/q4	11731
Testing rans4x16 -r -o9 on ./dat/q4	11111
Testing rans4x16 -r -o0 on ./dat/q40+dir	50247
Testing rans4x16 -r -o1 on ./dat/q40+dir	49449
Testing rans4x16 -r -o8 on ./dat/q40+dir	50072
Testing rans4x16 -r -o9 on ./dat/q40+dir	50072
Testing rans4x16 -r -o0 on ./dat/q8	33088
Testing rans4x16 -r -o1 on ./dat/q8	31372
Testing rans4x16 -r -o64 on ./dat/q8	33458
Testing rans4x16 -r -o65 on ./dat/q8	31025
Testing rans4x16 -r -o128 on ./dat/q8	32237
Testing rans4x16 -r -o129 on ./dat/q8	31258
Testing rans4x16 -r -o192 on ./dat/q8	32024
Testing rans4x16 -r -o193 on ./dat/q8	31146
Testing rans4x16 -r -o0 on ./dat/qvar	32987
Testing rans4x16 -r -o1 on ./dat/qvar	32261
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/arith_dynamic_test.o htscodecs/tests/arith_dynamic_test.c
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o htscodecs/tests/arith_dynamic htscodecs/tests/arith_dynamic_test.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o -llzma -lbz2 -lz -lm  -lm -lpthread
cd htscodecs/tests && srcdir=. && export srcdir && ./arith.test
Testing arith_dynamic -r -o0 on ./dat/q4	11615
Testing arith_dynamic -r -o1 on ./dat/q4	10831
Testing arith_dynamic -r -o64 on ./dat/q4	13360
Testing arith_dynamic -r -o65 on ./dat/q4	10484
Testing arith_dynamic -r -o128 on ./dat/q4	10774
Testing arith_dynamic -r -o129 on ./dat/q4	10329
Testing arith_dynamic -r -o192 on ./dat/q4	11095
Testing arith_dynamic -r -o193 on ./dat/q4	10283
Testing arith_dynamic -r -o8 on ./dat/q4	11448
Testing arith_dynamic -r -o9 on ./dat/q4	11083
Testing arith_dynamic -r -o0 on ./dat/q40+dir	49949
Testing arith_dynamic -r -o1 on ./dat/q40+dir	49034
Testing arith_dynamic -r -o64 on ./dat/q40+dir	51242
Testing arith_dynamic -r -o65 on ./dat/q40+dir	49061
Testing arith_dynamic -r -o8 on ./dat/q40+dir	49820
Testing arith_dynamic -r -o9 on ./dat/q40+dir	49448
Testing arith_dynamic -r -o0 on ./dat/q8	32752
Testing arith_dynamic -r -o1 on ./dat/q8	31331
Testing arith_dynamic -r -o64 on ./dat/q8	35211
Testing arith_dynamic -r -o65 on ./dat/q8	30907
Testing arith_dynamic -r -o128 on ./dat/q8	32063
Testing arith_dynamic -r -o129 on ./dat/q8	31084
Testing arith_dynamic -r -o192 on ./dat/q8	32267
Testing arith_dynamic -r -o193 on ./dat/q8	30931
Testing arith_dynamic -r -o0 on ./dat/qvar	32597
Testing arith_dynamic -r -o1 on ./dat/qvar	31982
Testing arith_dynamic -r -o64 on ./dat/qvar	33237
Testing arith_dynamic -r -o65 on ./dat/qvar	31993
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/tokenise_name3_test.o htscodecs/tests/tokenise_name3_test.c
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o htscodecs/tests/tokenise_name3 htscodecs/tests/tokenise_name3_test.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o -llzma -lbz2 -lz -lm  -lm -lpthread
cd htscodecs/tests && srcdir=. && export srcdir && ./tok3.test
Testing tokenise_name3 -r -1 on ./names/01.names	3392
Testing tokenise_name3 -r -3 on ./names/01.names	2471
Testing tokenise_name3 -r -5 on ./names/01.names	2283
Testing tokenise_name3 -r -7 on ./names/01.names	2234
Testing tokenise_name3 -r -9 on ./names/01.names	2234
Testing tokenise_name3 -r -11 on ./names/01.names	3151
Testing tokenise_name3 -r -13 on ./names/01.names	2424
Testing tokenise_name3 -r -15 on ./names/01.names	2061
Testing tokenise_name3 -r -17 on ./names/01.names	2051
Testing tokenise_name3 -r -19 on ./names/01.names	2049

Testing tokenise_name3 -r -1 on ./names/02.names	6633
Testing tokenise_name3 -r -3 on ./names/02.names	4983
Testing tokenise_name3 -r -5 on ./names/02.names	4942
Testing tokenise_name3 -r -7 on ./names/02.names	4922
Testing tokenise_name3 -r -9 on ./names/02.names	4918
Testing tokenise_name3 -r -11 on ./names/02.names	6087
Testing tokenise_name3 -r -13 on ./names/02.names	4797
Testing tokenise_name3 -r -15 on ./names/02.names	4714
Testing tokenise_name3 -r -17 on ./names/02.names	4695
Testing tokenise_name3 -r -19 on ./names/02.names	4695

Testing tokenise_name3 -r -1 on ./names/03.names	10557
Testing tokenise_name3 -r -3 on ./names/03.names	7822
Testing tokenise_name3 -r -5 on ./names/03.names	7557
Testing tokenise_name3 -r -7 on ./names/03.names	7521
Testing tokenise_name3 -r -9 on ./names/03.names	7521
Testing tokenise_name3 -r -11 on ./names/03.names	9294
Testing tokenise_name3 -r -13 on ./names/03.names	7291
Testing tokenise_name3 -r -15 on ./names/03.names	7125
Testing tokenise_name3 -r -17 on ./names/03.names	7069
Testing tokenise_name3 -r -19 on ./names/03.names	7068

Testing tokenise_name3 -r -1 on ./names/05.names	5098
Testing tokenise_name3 -r -3 on ./names/05.names	3600
Testing tokenise_name3 -r -5 on ./names/05.names	3551
Testing tokenise_name3 -r -7 on ./names/05.names	3534
Testing tokenise_name3 -r -9 on ./names/05.names	3534
Testing tokenise_name3 -r -11 on ./names/05.names	4648
Testing tokenise_name3 -r -13 on ./names/05.names	3405
Testing tokenise_name3 -r -15 on ./names/05.names	3381
Testing tokenise_name3 -r -17 on ./names/05.names	3377
Testing tokenise_name3 -r -19 on ./names/05.names	3377

Testing tokenise_name3 -r -1 on ./names/08.names	6841
Testing tokenise_name3 -r -3 on ./names/08.names	5291
Testing tokenise_name3 -r -5 on ./names/08.names	5206
Testing tokenise_name3 -r -7 on ./names/08.names	5160
Testing tokenise_name3 -r -9 on ./names/08.names	5160
Testing tokenise_name3 -r -11 on ./names/08.names	6374
Testing tokenise_name3 -r -13 on ./names/08.names	4895
Testing tokenise_name3 -r -15 on ./names/08.names	4851
Testing tokenise_name3 -r -17 on ./names/08.names	4805
Testing tokenise_name3 -r -19 on ./names/08.names	4805

Testing tokenise_name3 -r -1 on ./names/09.names	5339
Testing tokenise_name3 -r -3 on ./names/09.names	3598
Testing tokenise_name3 -r -5 on ./names/09.names	3527
Testing tokenise_name3 -r -7 on ./names/09.names	3493
Testing tokenise_name3 -r -9 on ./names/09.names	3493
Testing tokenise_name3 -r -11 on ./names/09.names	4861
Testing tokenise_name3 -r -13 on ./names/09.names	3427
Testing tokenise_name3 -r -15 on ./names/09.names	3391
Testing tokenise_name3 -r -17 on ./names/09.names	3366
Testing tokenise_name3 -r -19 on ./names/09.names	3366

Testing tokenise_name3 -r -1 on ./names/10.names	6458
Testing tokenise_name3 -r -3 on ./names/10.names	4843
Testing tokenise_name3 -r -5 on ./names/10.names	4799
Testing tokenise_name3 -r -7 on ./names/10.names	4746
Testing tokenise_name3 -r -9 on ./names/10.names	4744
Testing tokenise_name3 -r -11 on ./names/10.names	5785
Testing tokenise_name3 -r -13 on ./names/10.names	4567
Testing tokenise_name3 -r -15 on ./names/10.names	4492
Testing tokenise_name3 -r -17 on ./names/10.names	4472
Testing tokenise_name3 -r -19 on ./names/10.names	4472

Testing tokenise_name3 -r -1 on ./names/20.names	2511
Testing tokenise_name3 -r -3 on ./names/20.names	1701
Testing tokenise_name3 -r -5 on ./names/20.names	1659
Testing tokenise_name3 -r -7 on ./names/20.names	1632
Testing tokenise_name3 -r -9 on ./names/20.names	1632
Testing tokenise_name3 -r -11 on ./names/20.names	2319
Testing tokenise_name3 -r -13 on ./names/20.names	1629
Testing tokenise_name3 -r -15 on ./names/20.names	1605
Testing tokenise_name3 -r -17 on ./names/20.names	1600
Testing tokenise_name3 -r -19 on ./names/20.names	1600

Testing tokenise_name3 -r -1 on ./names/nv.names	6816
Testing tokenise_name3 -r -3 on ./names/nv.names	4989
Testing tokenise_name3 -r -5 on ./names/nv.names	4972
Testing tokenise_name3 -r -7 on ./names/nv.names	4937
Testing tokenise_name3 -r -9 on ./names/nv.names	4937
Testing tokenise_name3 -r -11 on ./names/nv.names	6084
Testing tokenise_name3 -r -13 on ./names/nv.names	4825
Testing tokenise_name3 -r -15 on ./names/nv.names	4771
Testing tokenise_name3 -r -17 on ./names/nv.names	4767
Testing tokenise_name3 -r -19 on ./names/nv.names	4767

Testing tokenise_name3 -r -1 on ./names/nv2.names	1181
Testing tokenise_name3 -r -3 on ./names/nv2.names	903
Testing tokenise_name3 -r -5 on ./names/nv2.names	879
Testing tokenise_name3 -r -7 on ./names/nv2.names	846
Testing tokenise_name3 -r -9 on ./names/nv2.names	846
Testing tokenise_name3 -r -11 on ./names/nv2.names	891
Testing tokenise_name3 -r -13 on ./names/nv2.names	836
Testing tokenise_name3 -r -15 on ./names/nv2.names	764
Testing tokenise_name3 -r -17 on ./names/nv2.names	747
Testing tokenise_name3 -r -19 on ./names/nv2.names	747

Testing tokenise_name3 -r -1 on ./names/rr.names	8788
Testing tokenise_name3 -r -3 on ./names/rr.names	6290
Testing tokenise_name3 -r -5 on ./names/rr.names	6252
Testing tokenise_name3 -r -7 on ./names/rr.names	6230
Testing tokenise_name3 -r -9 on ./names/rr.names	6230
Testing tokenise_name3 -r -11 on ./names/rr.names	8319
Testing tokenise_name3 -r -13 on ./names/rr.names	6066
Testing tokenise_name3 -r -15 on ./names/rr.names	5972
Testing tokenise_name3 -r -17 on ./names/rr.names	5963
Testing tokenise_name3 -r -19 on ./names/rr.names	5963

gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/fqzcomp_qual_test.o htscodecs/tests/fqzcomp_qual_test.c
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o htscodecs/tests/fqzcomp_qual htscodecs/tests/fqzcomp_qual_test.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o -llzma -lbz2 -lz -lm  -lm -lpthread
cd htscodecs/tests && srcdir=. && export srcdir && ./fqzcomp.test
Testing fqzcomp_qual -r -s 0 on ./dat/q4	9307
Testing fqzcomp_qual -r -s 1 on ./dat/q4	9618
Testing fqzcomp_qual -r -s 2 on ./dat/q4	9453
Testing fqzcomp_qual -r -s 3 on ./dat/q4	10481

Testing fqzcomp_qual -r -s 0 on ./dat/q40+dir	47674
Testing fqzcomp_qual -r -s 1 on ./dat/q40+dir	45016
Testing fqzcomp_qual -r -s 2 on ./dat/q40+dir	47760
Testing fqzcomp_qual -r -s 3 on ./dat/q40+dir	48583

Testing fqzcomp_qual -r -s 0 on ./dat/q8	30012
Testing fqzcomp_qual -r -s 1 on ./dat/q8	33742
Testing fqzcomp_qual -r -s 2 on ./dat/q8	30982
Testing fqzcomp_qual -r -s 3 on ./dat/q8	31709

Testing fqzcomp_qual -r -s 0 on ./dat/qvar	32868
Testing fqzcomp_qual -r -s 1 on ./dat/qvar	35007
Testing fqzcomp_qual -r -s 2 on ./dat/qvar	32400
Testing fqzcomp_qual -r -s 3 on ./dat/qvar	32073

gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -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 -march=z13 -mtune=z14 -fasynchronous-unwind-tables -fstack-clash-protection -fvisibility=hidden -I. -Ihtscodecs -D_POSIX_C_SOURCE=200112L -c -o htscodecs/tests/varint_test.o htscodecs/tests/varint_test.c
gcc -Wl,-z,relro -Wl,--as-needed   -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -fvisibility=hidden -rdynamic -o htscodecs/tests/varint htscodecs/tests/varint_test.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o -llzma -lbz2 -lz -lm  -lm -lpthread
cd htscodecs/tests && ./varint
test/hts_endian
test/test_expr
test/test_kfunc
test/test_kstring
test/test_str2int
test/fieldarith test/fieldarith.sam
test/hfile
HTS_PATH=. test/with-shlib.sh test/plugins-dlhts -g ./libhts.so
HTS_PATH=. test/with-shlib.sh test/plugins-dlhts -l ./libhts.so
test/test_bgzf test/bgziptest.txt
test/test-parse-reg -t test/colons.bam
Expected error: [E::hts_parse_region] Range is ambiguous. Use {chr1:100-200} or {chr1}:100-200 instead
Expected error: [E::hts_parse_region] Range is ambiguous. Use {chr1:100-200,chr3} or {chr1}:100-200,chr3 instead
Expected error: [E::hts_parse_region] Mismatching braces in "{chr1"
Expected error: [E::hts_parse_region] Unexpected string "x" after region
Expected error: [E::hts_parse_region] Unexpected string "y" after region
Expected error: [E::hts_parse_region] Unexpected string "chr3" after region
cd test/sam_filter && ./filter.sh filter.tst
Testing sam_filter...
PASS : $tv -i 'filter=qname =~ "\.1" && cigar =~ "D"' ../ce#1000.sam
PASS : $tv -i 'filter=rname=="CHROMOSOME_II"' ../ce#5b.sam
PASS : $tv -i 'filter=rname=~"CHROMOSOME_II"' ../ce#5b.sam
PASS : $tv -i 'filter=cigar=~"D"' ../ce#1000.sam
PASS : $tv -i 'filter=seq =~ "(AT){2}"' ../ce#1000.sam
PASS : $tv -i 'filter=library=="x"' ../xx#rg.sam
PASS : $tv -i 'filter=library!="x"' ../xx#rg.sam
PASS : $tv -i 'filter=pos % 23 == 11' ../ce#1000.sam |egrep -cv '^@'
PASS : $tv -i 'filter=qlen/(flag*mapq+pos)>5' ../ce#1000.sam |egrep -cv '^@'
PASS : $tv -i 'filter=[NM]>=10 || [MD]=~"A.*A.*A"' -t4 ../ce#1000.sam |egrep -cv '^@'
PASS : $tv -i 'filter=length(seq) != qlen' ../ce#5b.sam | egrep -cv '^@'
PASS : $tv -i 'filter=min(qual) >= 20' ../ce#1000.sam | egrep -cv '^@'
PASS : $tv -i 'filter=max(qual) <= 20' ../ce#1000.sam | egrep -cv '^@'
PASS : $tv -i 'filter=avg(qual) >= 20 && avg(qual) <= 30' ../ce#1000.sam | egrep -cv '^@'

Expected   passes:   14
Unexpected passes:   0
Expected   failures: 0
Unexpected failures: 0
cd test/tabix && ./test-tabix.sh tabix.tst
Testing tabix...
PASS : $tabix -f -p vcf vcf_file.tbi.tmp.vcf.gz
PASS : $tabix vcf_file.tbi.tmp.vcf.gz 1:3000151-3000151
PASS : $tabix vcf_file.tbi.tmp.vcf.gz 2:3199812-3199812
PASS : $tabix -f -C -p vcf vcf_file.csi.tmp.vcf.gz
PASS : $tabix vcf_file.csi.tmp.vcf.gz 1:3000151-3000151
PASS : $tabix vcf_file.csi.tmp.vcf.gz 2:3199812-3199812
PASS : $tabix -f -p vcf large_chr.tmp.vcf.gz (must exit non-zero)
PASS : $tabix -f -C -p vcf large_chr.tmp.vcf.gz
PASS : $tabix large_chr.tmp.vcf.gz chr20:1-2147483647
PASS : $tabix -f -p bed bed_file.tbi.tmp.bed.gz
PASS : $tabix bed_file.tbi.tmp.bed.gz Y:100200-100200
PASS : $tabix -f -p gff gff_file.tbi.tmp.gff.gz
PASS : $tabix gff_file.tbi.tmp.gff.gz X:2934832-2935190
PASS : $tabix --separate-regions bed_file.tbi.tmp.bed.gz X:1100-1400 Y:100000-100550 Z:100000-100005

Expected   passes:   14
Unexpected passes:   0
Expected   failures: 0
Unexpected failures: 0
cd test/mpileup && ./test-pileup.sh mpileup.tst
Testing (m)pileup...
PASS : $pileup mp_D.sam
PASS : $pileup -m mp_D.sam
PASS : $pileup mp_DI.sam
PASS : $pileup -m mp_DI.sam
PASS : $pileup mp_I.sam
PASS : $pileup -m mp_I.sam
PASS : $pileup mp_P.sam
PASS : $pileup -m mp_P.sam
PASS : $pileup mp_ID.sam
PASS : $pileup -m mp_ID.sam
PASS : $pileup mp_N.sam
PASS : $pileup -m mp_N.sam
PASS : $pileup mp_N2.sam
PASS : $pileup -m mp_N2.sam
PASS : $pileup c1#pad1.sam
PASS : $pileup -m c1#pad1.sam
PASS : $pileup c1#pad2.sam
PASS : $pileup -m c1#pad2.sam
PASS : $pileup c1#pad3.sam
PASS : $pileup -m c1#pad3.sam
PASS : $pileup -m small.bam

Expected   passes:   21
Unexpected passes:   0
Expected   failures: 0
Unexpected failures: 0
cd test/fastq && ./test-fastq.sh
Testing fastq support
PASS : $tview minimal.fq
PASS : $tview minimal.fa
PASS : $tview multiline.fq
PASS : $tview multiline.fa
PASS : $tview single.fq
PASS : $tview single.fa
PASS : $tview -i fastq_aux single.fq
PASS : $tview -i fastq_aux single.fa
PASS : $tview interleaved.fq
PASS : $tview interleaved.fa
PASS : $tview -i fastq_aux interleaved.fq
PASS : $tview -i fastq_aux interleaved.fa
PASS : $tview -i fastq_casava interleaved_casava.fq
PASS : $tview -i fastq_barcode=OX -i fastq_casava interleaved_casava.fq
PASS : $tview -i fastq_casava interleaved_casava.fa
PASS : $tview -i fastq_barcode=OX -i fastq_casava interleaved_casava.fa
PASS : $tview -i fastq_casava filter_casava.fq
PASS : $tview -i fastq_casava filter_casava.fa
PASS : $tview -i fastq_aux r1.fq
PASS : $tview -i fastq_aux r2.fq
PASS : $tview -i fastq_aux r1.fa
PASS : $tview -i fastq_aux r2.fa
PASS : $tview -i fastq_name2 name2.fq
PASS : $tview -i fastq_name2 name2.fa
PASS : $tview -f minimal.sam
PASS : $tview -F minimal.sam
PASS : $tview -f -o fastq_aux single_aux.sam
PASS : $tview -F -o fastq_aux single_aux.sam
PASS : $tview -f -o fastq_aux -o fastq_rnum inter_aux.sam
PASS : $tview -F -o fastq_aux -o fastq_rnum inter_aux.sam
PASS : $tview -f -o fastq_casava inter_casava.sam
PASS : $tview -f -o fastq_barcode=OX -o fastq_casava inter_casavaOX.sam
PASS : $tview -F -o fastq_casava inter_casava.sam
PASS : $tview -F -o fastq_barcode=OX -o fastq_casava inter_casavaOX.sam
PASS : $tview -f -o fastq_casava filter_casava.sam
PASS : $tview -F -o fastq_casava filter_casava.sam
PASS : $tview -f -o fastq_aux -o fastq_rnum r1.sam
PASS : $tview -f -o fastq_aux -o fastq_rnum r2.sam
PASS : $tview -F -o fastq_aux -o fastq_rnum r1.sam
PASS : $tview -F -o fastq_aux -o fastq_rnum r2.sam

Expected   passes:   40
Unexpected passes:   0
Expected   failures: 0
Unexpected failures: 0
cd test/base_mods && ./base-mods.sh base-mods.tst
Testing base-modifications...
PASS : $test_mod MM-chebi.sam
PASS : $test_mod MM-double.sam
PASS : $test_mod MM-multi.sam
PASS : $pileup_mod < MM-pileup.sam
PASS : $pileup_mod < MM-pileup2.sam

Expected   passes:   5
Unexpected passes:   0
Expected   failures: 0
Unexpected failures: 0
REF_PATH=: test/sam test/ce.fa test/faidx.fa test/fastqs.fq
(Expect trailing 'x' message for " 	 -1,001x")
[W::hts_parse_decimal] Ignoring unknown characters after -1,001[x]
(Expect trailing 'k' message for "1.5e+3k")
[W::hts_parse_decimal] Ignoring unknown characters after 1.5e+3[k]
(Expect dropped fraction message for "12.3456k")
[W::hts_parse_decimal] Discarding fractional part of 12.3456k
[W::hts_parse_decimal] Discarding fractional part of 12.3456k
(Expect invalid numeric message for "A")
[W::hts_parse_decimal] Invalid numeric value A[truncated]
(Expect invalid numeric message for "G")
[W::hts_parse_decimal] Invalid numeric value G[truncated]
(Expect invalid numeric message for " +/-")
[W::hts_parse_decimal] Invalid numeric value +/-[truncated]
(Expect invalid numeric message for " 	 -.e+9999")
[W::hts_parse_decimal] Invalid numeric value -.e+9999[truncated]
test/test-regidx
cd test && REF_PATH=: ./test.pl ${TEST_OPTS:-}
"my" variable @p masks earlier declaration in same scope at ./test.pl line 617.
bgzip round-trip no threads: .. ok

bgzip -b no threads: .. ok

bgzip -b -I no threads: .. ok

bgzip round-trip  4 threads: .. ok

bgzip -b  4 threads: .. ok

bgzip -b -I  4 threads: .. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -b -m 14 -x /tmp/7pMqBKF13b/index.bam.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.bam
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.bam
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -b -m 0 -x /tmp/7pMqBKF13b/index.bam.bai /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.bam
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -b /tmp/7pMqBKF13b/index.bam
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -z -m 14 -x /tmp/7pMqBKF13b/index.sam.gz.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -z -m 0 -x /tmp/7pMqBKF13b/index.sam.gz.bai /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -b /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -z -m 14 -x /tmp/7pMqBKF13b/index.sam.gz.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index_dos.sam > /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -z -m 0 -x /tmp/7pMqBKF13b/index.sam.gz.bai /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index_dos.sam > /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -b /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -C -x /tmp/7pMqBKF13b/index.cram.crai /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.cram
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index /tmp/7pMqBKF13b/index.cram
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -b -m 14 -x /tmp/7pMqBKF13b/index.bcf.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.vcf > /tmp/7pMqBKF13b/index.bcf
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.bcf
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -z -m 14 -x /tmp/7pMqBKF13b/index.vcf.gz.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.vcf > /tmp/7pMqBKF13b/index.vcf.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.vcf.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view  -l 0 -z -m 0 -x /tmp/7pMqBKF13b/index.vcf.gz.tbi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.vcf > /tmp/7pMqBKF13b/index.vcf.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -t /tmp/7pMqBKF13b/index.vcf.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/tabix /tmp/7pMqBKF13b/index.vcf.gz##idx##/tmp/7pMqBKF13b/index.vcf.gz.tbi 1:10000060-10000060
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /tmp/7pMqBKF13b/index2.bam 1:1000000-1000000
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /tmp/7pMqBKF13b/index2.bam 1:2000000-2000000
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /tmp/7pMqBKF13b/index2.bam 2:1000000-1000000
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /tmp/7pMqBKF13b/index2.bam 2:2000000-2000000
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -b -m 14 -x /tmp/7pMqBKF13b/index.bam.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.bam
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.bam
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -b -m 0 -x /tmp/7pMqBKF13b/index.bam.bai /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.bam
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -b /tmp/7pMqBKF13b/index.bam
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 14 -x /tmp/7pMqBKF13b/index.sam.gz.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 0 -x /tmp/7pMqBKF13b/index.sam.gz.bai /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -b /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 14 -x /tmp/7pMqBKF13b/index.sam.gz.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index_dos.sam > /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 0 -x /tmp/7pMqBKF13b/index.sam.gz.bai /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index_dos.sam > /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -b /tmp/7pMqBKF13b/index.sam.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -C -x /tmp/7pMqBKF13b/index.cram.crai /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.sam > /tmp/7pMqBKF13b/index.cram
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index /tmp/7pMqBKF13b/index.cram
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -b -m 14 -x /tmp/7pMqBKF13b/index.bcf.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.vcf > /tmp/7pMqBKF13b/index.bcf
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.bcf
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 14 -x /tmp/7pMqBKF13b/index.vcf.gz.csi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.vcf > /tmp/7pMqBKF13b/index.vcf.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c /tmp/7pMqBKF13b/index.vcf.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -@4 -l 0 -z -m 0 -x /tmp/7pMqBKF13b/index.vcf.gz.tbi /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/index.vcf > /tmp/7pMqBKF13b/index.vcf.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -t /tmp/7pMqBKF13b/index.vcf.gz
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/tabix /tmp/7pMqBKF13b/index.vcf.gz##idx##/tmp/7pMqBKF13b/index.vcf.gz.tbi 1:10000060-10000060
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /tmp/7pMqBKF13b/index2.bam 1:1000000-1000000
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /tmp/7pMqBKF13b/index2.bam 1:2000000-2000000
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /tmp/7pMqBKF13b/index2.bam 2:1000000-1000000
.. ok

test_index:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /tmp/7pMqBKF13b/index2.bam 2:2000000-2000000
.. ok

test_view testing multi-ref CRAM modes:
  ./test_view  -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=-1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram
  ./test_view  multi_ref.tmp.cram > multi_ref.tmp.sam_
  ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_
  ./test_view  -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=0 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram
  ./test_view  multi_ref.tmp.cram > multi_ref.tmp.sam_
  ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_
  ./test_view  -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram
  ./test_view  multi_ref.tmp.cram > multi_ref.tmp.sam_
  ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_
.. ok

test_view testing multi-ref CRAM modes:
  ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=-1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram
  ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_
  ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_
  ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=0 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram
  ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_
  ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_
  ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram
  ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_
  ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_
.. ok

test_view testing auxf#values.sam, ref auxf.fa:
  ./test_view  -S -l0 -b auxf#values.sam > auxf#values.tmp.bam
  ./test_view  auxf#values.tmp.bam > auxf#values.tmp.bam.sam_
  ./compare_sam.pl auxf#values.sam auxf#values.tmp.bam.sam_
  ./test_view  -t auxf.fa -S -C -o VERSION=2.1 auxf#values.sam > auxf#values.tmp.cram
  ./test_view  -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_
  ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_
  ./test_view  -t auxf.fa -C -o VERSION=3.0 auxf#values.tmp.bam > auxf#values.tmp.bam.cram
  ./test_view  auxf#values.tmp.bam.cram > auxf#values.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.bam.cram.bam.sam_
  ./test_view  -i reference=auxf.fa auxf#values_java.cram > auxf#values_java.tmp.sam_
  ./compare_sam.pl -Baux -nomd auxf#values.sam auxf#values_java.tmp.sam_
.. ok

test_view testing c1#bounds.sam, ref c1.fa:
  ./test_view  -S -l0 -b c1#bounds.sam > c1#bounds.tmp.bam
  ./test_view  c1#bounds.tmp.bam > c1#bounds.tmp.bam.sam_
  ./compare_sam.pl c1#bounds.sam c1#bounds.tmp.bam.sam_
  ./test_view  -t c1.fa -S -C -o VERSION=2.1 c1#bounds.sam > c1#bounds.tmp.cram
  ./test_view  -D c1#bounds.tmp.cram > c1#bounds.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.cram.sam_
  ./test_view  -t c1.fa -C -o VERSION=3.0 c1#bounds.tmp.bam > c1#bounds.tmp.bam.cram
  ./test_view  c1#bounds.tmp.bam.cram > c1#bounds.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#clip.sam, ref c1.fa:
  ./test_view  -S -l0 -b c1#clip.sam > c1#clip.tmp.bam
  ./test_view  c1#clip.tmp.bam > c1#clip.tmp.bam.sam_
  ./compare_sam.pl c1#clip.sam c1#clip.tmp.bam.sam_
  ./test_view  -t c1.fa -S -C -o VERSION=2.1 c1#clip.sam > c1#clip.tmp.cram
  ./test_view  -D c1#clip.tmp.cram > c1#clip.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.cram.sam_
  ./test_view  -t c1.fa -C -o VERSION=3.0 c1#clip.tmp.bam > c1#clip.tmp.bam.cram
  ./test_view  c1#clip.tmp.bam.cram > c1#clip.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#noseq.sam, ref c1.fa:
  ./test_view  -S -l0 -b c1#noseq.sam > c1#noseq.tmp.bam
  ./test_view  c1#noseq.tmp.bam > c1#noseq.tmp.bam.sam_
  ./compare_sam.pl c1#noseq.sam c1#noseq.tmp.bam.sam_
  ./test_view  -t c1.fa -S -C -o VERSION=2.1 c1#noseq.sam > c1#noseq.tmp.cram
  ./test_view  -D c1#noseq.tmp.cram > c1#noseq.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.cram.sam_
  ./test_view  -t c1.fa -C -o VERSION=3.0 c1#noseq.tmp.bam > c1#noseq.tmp.bam.cram
  ./test_view  c1#noseq.tmp.bam.cram > c1#noseq.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#pad1.sam, ref c1.fa:
  ./test_view  -S -l0 -b c1#pad1.sam > c1#pad1.tmp.bam
  ./test_view  c1#pad1.tmp.bam > c1#pad1.tmp.bam.sam_
  ./compare_sam.pl c1#pad1.sam c1#pad1.tmp.bam.sam_
  ./test_view  -t c1.fa -S -C -o VERSION=2.1 c1#pad1.sam > c1#pad1.tmp.cram
  ./test_view  -D c1#pad1.tmp.cram > c1#pad1.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.cram.sam_
  ./test_view  -t c1.fa -C -o VERSION=3.0 c1#pad1.tmp.bam > c1#pad1.tmp.bam.cram
  ./test_view  c1#pad1.tmp.bam.cram > c1#pad1.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#pad2.sam, ref c1.fa:
  ./test_view  -S -l0 -b c1#pad2.sam > c1#pad2.tmp.bam
  ./test_view  c1#pad2.tmp.bam > c1#pad2.tmp.bam.sam_
  ./compare_sam.pl c1#pad2.sam c1#pad2.tmp.bam.sam_
  ./test_view  -t c1.fa -S -C -o VERSION=2.1 c1#pad2.sam > c1#pad2.tmp.cram
  ./test_view  -D c1#pad2.tmp.cram > c1#pad2.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.cram.sam_
  ./test_view  -t c1.fa -C -o VERSION=3.0 c1#pad2.tmp.bam > c1#pad2.tmp.bam.cram
  ./test_view  c1#pad2.tmp.bam.cram > c1#pad2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#pad3.sam, ref c1.fa:
  ./test_view  -S -l0 -b c1#pad3.sam > c1#pad3.tmp.bam
  ./test_view  c1#pad3.tmp.bam > c1#pad3.tmp.bam.sam_
  ./compare_sam.pl c1#pad3.sam c1#pad3.tmp.bam.sam_
  ./test_view  -t c1.fa -S -C -o VERSION=2.1 c1#pad3.sam > c1#pad3.tmp.cram
  ./test_view  -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_
  ./test_view  -t c1.fa -C -o VERSION=3.0 c1#pad3.tmp.bam > c1#pad3.tmp.bam.cram
  ./test_view  c1#pad3.tmp.bam.cram > c1#pad3.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#unknown.sam, ref c1.fa:
  ./test_view  -S -l0 -b c1#unknown.sam > c1#unknown.tmp.bam
  ./test_view  c1#unknown.tmp.bam > c1#unknown.tmp.bam.sam_
  ./compare_sam.pl c1#unknown.sam c1#unknown.tmp.bam.sam_
  ./test_view  -t c1.fa -S -C -o VERSION=2.1 c1#unknown.sam > c1#unknown.tmp.cram
  ./test_view  -D c1#unknown.tmp.cram > c1#unknown.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.cram.sam_
  ./test_view  -t c1.fa -C -o VERSION=3.0 c1#unknown.tmp.bam > c1#unknown.tmp.bam.cram
  ./test_view  c1#unknown.tmp.bam.cram > c1#unknown.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.bam.cram.bam.sam_
.. ok

test_view testing c2#pad.sam, ref c2.fa:
  ./test_view  -S -l0 -b c2#pad.sam > c2#pad.tmp.bam
  ./test_view  c2#pad.tmp.bam > c2#pad.tmp.bam.sam_
  ./compare_sam.pl c2#pad.sam c2#pad.tmp.bam.sam_
  ./test_view  -t c2.fa -S -C -o VERSION=2.1 c2#pad.sam > c2#pad.tmp.cram
  ./test_view  -D c2#pad.tmp.cram > c2#pad.tmp.cram.sam_
  ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.cram.sam_
  ./test_view  -t c2.fa -C -o VERSION=3.0 c2#pad.tmp.bam > c2#pad.tmp.bam.cram
  ./test_view  c2#pad.tmp.bam.cram > c2#pad.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#1.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#1.sam > ce#1.tmp.bam
  ./test_view  ce#1.tmp.bam > ce#1.tmp.bam.sam_
  ./compare_sam.pl ce#1.sam ce#1.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#1.sam > ce#1.tmp.cram
  ./test_view  -D ce#1.tmp.cram > ce#1.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#1.tmp.bam > ce#1.tmp.bam.cram
  ./test_view  ce#1.tmp.bam.cram > ce#1.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#1000.sam, ref ce.fa:
  ./test_view  -S -b ce#1000.sam > ce#1000.tmp.bam
  ./test_view  ce#1000.tmp.bam > ce#1000.tmp.bam.sam_
  ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_
  ./test_view  -S -l0 -b ce#1000.sam > ce#1000.tmp.bam
  ./test_view  ce#1000.tmp.bam > ce#1000.tmp.bam.sam_
  ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#1000.sam > ce#1000.tmp.cram
  ./test_view  -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
  ./test_view  -t ce.fa -S -l0 -C -o VERSION=3.0 ce#1000.sam > ce#1000.tmp.cram
  ./test_view  -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#1000.tmp.bam > ce#1000.tmp.bam.cram
  ./test_view  ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#2.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#2.sam > ce#2.tmp.bam
  ./test_view  ce#2.tmp.bam > ce#2.tmp.bam.sam_
  ./compare_sam.pl ce#2.sam ce#2.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#2.sam > ce#2.tmp.cram
  ./test_view  -D ce#2.tmp.cram > ce#2.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#2.tmp.bam > ce#2.tmp.bam.cram
  ./test_view  ce#2.tmp.bam.cram > ce#2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#5.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#5.sam > ce#5.tmp.bam
  ./test_view  ce#5.tmp.bam > ce#5.tmp.bam.sam_
  ./compare_sam.pl ce#5.sam ce#5.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#5.sam > ce#5.tmp.cram
  ./test_view  -D ce#5.tmp.cram > ce#5.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#5.tmp.bam > ce#5.tmp.bam.cram
  ./test_view  ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#5b.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#5b.sam > ce#5b.tmp.bam
  ./test_view  ce#5b.tmp.bam > ce#5b.tmp.bam.sam_
  ./compare_sam.pl ce#5b.sam ce#5b.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#5b.sam > ce#5b.tmp.cram
  ./test_view  -D ce#5b.tmp.cram > ce#5b.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#5b.tmp.bam > ce#5b.tmp.bam.cram
  ./test_view  ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.bam.sam_
  ./test_view  -i reference=ce.fa ce#5b_java.cram > ce#5b_java.tmp.sam_
  ./compare_sam.pl -Baux -nomd ce#5b.sam ce#5b_java.tmp.sam_
.. ok

test_view testing ce#large_seq.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#large_seq.sam > ce#large_seq.tmp.bam
  ./test_view  ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.sam_
  ./compare_sam.pl ce#large_seq.sam ce#large_seq.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#large_seq.sam > ce#large_seq.tmp.cram
  ./test_view  -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.cram
  ./test_view  ce#large_seq.tmp.bam.cram > ce#large_seq.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#supp.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#supp.sam > ce#supp.tmp.bam
  ./test_view  ce#supp.tmp.bam > ce#supp.tmp.bam.sam_
  ./compare_sam.pl ce#supp.sam ce#supp.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#supp.sam > ce#supp.tmp.cram
  ./test_view  -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#supp.tmp.bam > ce#supp.tmp.bam.cram
  ./test_view  ce#supp.tmp.bam.cram > ce#supp.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#tag_depadded.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#tag_depadded.sam > ce#tag_depadded.tmp.bam
  ./test_view  ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.sam_
  ./compare_sam.pl ce#tag_depadded.sam ce#tag_depadded.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#tag_depadded.sam > ce#tag_depadded.tmp.cram
  ./test_view  -D ce#tag_depadded.tmp.cram > ce#tag_depadded.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.cram
  ./test_view  ce#tag_depadded.tmp.bam.cram > ce#tag_depadded.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#tag_padded.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#tag_padded.sam > ce#tag_padded.tmp.bam
  ./test_view  ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.sam_
  ./compare_sam.pl ce#tag_padded.sam ce#tag_padded.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#tag_padded.sam > ce#tag_padded.tmp.cram
  ./test_view  -D ce#tag_padded.tmp.cram > ce#tag_padded.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.cram
  ./test_view  ce#tag_padded.tmp.bam.cram > ce#tag_padded.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#unmap.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#unmap.sam > ce#unmap.tmp.bam
  ./test_view  ce#unmap.tmp.bam > ce#unmap.tmp.bam.sam_
  ./compare_sam.pl ce#unmap.sam ce#unmap.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#unmap.sam > ce#unmap.tmp.cram
  ./test_view  -D ce#unmap.tmp.cram > ce#unmap.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#unmap.tmp.bam > ce#unmap.tmp.bam.cram
  ./test_view  ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#unmap1.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#unmap1.sam > ce#unmap1.tmp.bam
  ./test_view  ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.sam_
  ./compare_sam.pl ce#unmap1.sam ce#unmap1.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#unmap1.sam > ce#unmap1.tmp.cram
  ./test_view  -D ce#unmap1.tmp.cram > ce#unmap1.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.cram
  ./test_view  ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#unmap2.sam, ref ce.fa:
  ./test_view  -S -l0 -b ce#unmap2.sam > ce#unmap2.tmp.bam
  ./test_view  ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.sam_
  ./compare_sam.pl ce#unmap2.sam ce#unmap2.tmp.bam.sam_
  ./test_view  -t ce.fa -S -C -o VERSION=2.1 ce#unmap2.sam > ce#unmap2.tmp.cram
  ./test_view  -D ce#unmap2.tmp.cram > ce#unmap2.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.cram.sam_
  ./test_view  -t ce.fa -C -o VERSION=3.0 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.cram
  ./test_view  ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.bam.sam_
.. ok

test_view testing md#1.sam, ref md.fa:
  ./test_view  -S -l0 -b md#1.sam > md#1.tmp.bam
  ./test_view  md#1.tmp.bam > md#1.tmp.bam.sam_
  ./compare_sam.pl md#1.sam md#1.tmp.bam.sam_
  ./test_view  -t md.fa -S -C -o VERSION=2.1 md#1.sam > md#1.tmp.cram
  ./test_view  -D md#1.tmp.cram > md#1.tmp.cram.sam_
  ./compare_sam.pl  md#1.sam md#1.tmp.cram.sam_
  ./test_view  -t md.fa -C -o VERSION=3.0 md#1.tmp.bam > md#1.tmp.bam.cram
  ./test_view  md#1.tmp.bam.cram > md#1.tmp.bam.cram.bam.sam_
  ./compare_sam.pl  md#1.sam md#1.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#blank.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#blank.sam > xx#blank.tmp.bam
  ./test_view  xx#blank.tmp.bam > xx#blank.tmp.bam.sam_
  ./compare_sam.pl xx#blank.sam xx#blank.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#blank.sam > xx#blank.tmp.cram
  ./test_view  -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#blank.tmp.bam > xx#blank.tmp.bam.cram
  ./test_view  xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#large_aux.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#large_aux.sam > xx#large_aux.tmp.bam
  ./test_view  xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.sam_
  ./compare_sam.pl xx#large_aux.sam xx#large_aux.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#large_aux.sam > xx#large_aux.tmp.cram
  ./test_view  -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.cram
  ./test_view  xx#large_aux.tmp.bam.cram > xx#large_aux.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.bam.cram.bam.sam_
  ./test_view  -i reference=xx.fa xx#large_aux_java.cram > xx#large_aux_java.tmp.sam_
[W::sanitise_SQ_lines] Header @SQ length mismatch for ref xx, 30 vs 20
  ./compare_sam.pl -Baux -nomd xx#large_aux.sam xx#large_aux_java.tmp.sam_
.. ok

test_view testing xx#large_aux2.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#large_aux2.sam > xx#large_aux2.tmp.bam
  ./test_view  xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.sam_
  ./compare_sam.pl xx#large_aux2.sam xx#large_aux2.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#large_aux2.sam > xx#large_aux2.tmp.cram
  ./test_view  -D xx#large_aux2.tmp.cram > xx#large_aux2.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.cram
  ./test_view  xx#large_aux2.tmp.bam.cram > xx#large_aux2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#MD.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#MD.sam > xx#MD.tmp.bam
  ./test_view  xx#MD.tmp.bam > xx#MD.tmp.bam.sam_
  ./compare_sam.pl xx#MD.sam xx#MD.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#MD.sam > xx#MD.tmp.cram
  ./test_view  -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#MD.tmp.bam > xx#MD.tmp.bam.cram
  ./test_view  xx#MD.tmp.bam.cram > xx#MD.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#MD2.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#MD2.sam > xx#MD2.tmp.bam
  ./test_view  xx#MD2.tmp.bam > xx#MD2.tmp.bam.sam_
  ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#MD2.sam > xx#MD2.tmp.cram
  ./test_view  -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#MD2.tmp.bam > xx#MD2.tmp.bam.cram
  ./test_view  xx#MD2.tmp.bam.cram > xx#MD2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#minimal.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#minimal.sam > xx#minimal.tmp.bam
  ./test_view  xx#minimal.tmp.bam > xx#minimal.tmp.bam.sam_
  ./compare_sam.pl xx#minimal.sam xx#minimal.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#minimal.sam > xx#minimal.tmp.cram
  ./test_view  -D xx#minimal.tmp.cram > xx#minimal.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#minimal.tmp.bam > xx#minimal.tmp.bam.cram
  ./test_view  xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#pair.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#pair.sam > xx#pair.tmp.bam
  ./test_view  xx#pair.tmp.bam > xx#pair.tmp.bam.sam_
  ./compare_sam.pl xx#pair.sam xx#pair.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#pair.sam > xx#pair.tmp.cram
  ./test_view  -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#pair.tmp.bam > xx#pair.tmp.bam.cram
  ./test_view  xx#pair.tmp.bam.cram > xx#pair.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#repeated.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#repeated.sam > xx#repeated.tmp.bam
  ./test_view  xx#repeated.tmp.bam > xx#repeated.tmp.bam.sam_
  ./compare_sam.pl xx#repeated.sam xx#repeated.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#repeated.sam > xx#repeated.tmp.cram
  ./test_view  -D xx#repeated.tmp.cram > xx#repeated.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#repeated.tmp.bam > xx#repeated.tmp.bam.cram
  ./test_view  xx#repeated.tmp.bam.cram > xx#repeated.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#rg.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#rg.sam > xx#rg.tmp.bam
  ./test_view  xx#rg.tmp.bam > xx#rg.tmp.bam.sam_
  ./compare_sam.pl xx#rg.sam xx#rg.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#rg.sam > xx#rg.tmp.cram
  ./test_view  -D xx#rg.tmp.cram > xx#rg.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#rg.tmp.bam > xx#rg.tmp.bam.cram
  ./test_view  xx#rg.tmp.bam.cram > xx#rg.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#tlen.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#tlen.sam > xx#tlen.tmp.bam
  ./test_view  xx#tlen.tmp.bam > xx#tlen.tmp.bam.sam_
  ./compare_sam.pl xx#tlen.sam xx#tlen.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#tlen.sam > xx#tlen.tmp.cram
  ./test_view  -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#tlen.tmp.bam > xx#tlen.tmp.bam.cram
  ./test_view  xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#tlen2.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#tlen2.sam > xx#tlen2.tmp.bam
  ./test_view  xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.sam_
  ./compare_sam.pl xx#tlen2.sam xx#tlen2.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#tlen2.sam > xx#tlen2.tmp.cram
  ./test_view  -D xx#tlen2.tmp.cram > xx#tlen2.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.cram
  ./test_view  xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#triplet.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#triplet.sam > xx#triplet.tmp.bam
  ./test_view  xx#triplet.tmp.bam > xx#triplet.tmp.bam.sam_
  ./compare_sam.pl xx#triplet.sam xx#triplet.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#triplet.sam > xx#triplet.tmp.cram
  ./test_view  -D xx#triplet.tmp.cram > xx#triplet.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#triplet.tmp.bam > xx#triplet.tmp.bam.cram
  ./test_view  xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#unsorted.sam, ref xx.fa:
  ./test_view  -S -l0 -b xx#unsorted.sam > xx#unsorted.tmp.bam
  ./test_view  xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.sam_
  ./compare_sam.pl xx#unsorted.sam xx#unsorted.tmp.bam.sam_
  ./test_view  -t xx.fa -S -C -o VERSION=2.1 xx#unsorted.sam > xx#unsorted.tmp.cram
  ./test_view  -D xx#unsorted.tmp.cram > xx#unsorted.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.cram.sam_
  ./test_view  -t xx.fa -C -o VERSION=3.0 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.cram
  ./test_view  xx#unsorted.tmp.bam.cram > xx#unsorted.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.bam.cram.bam.sam_
.. ok

test_view testing region queries:
  ./test_view  -i reference=ce.fa range.cram CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp
  ./compare_sam.pl range.tmp range.out
  ./test_view  range.bam CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp
  ./compare_sam.pl range.tmp range.out
.. ok

test_view testing BAM files with absent @SQ lines:
  ./test_view  -p no_hdr_sq_1.tmp.sam no_hdr_sq_1.bam
  ./compare_sam.pl no_hdr_sq_1.tmp.sam no_hdr_sq_1.expected.sam
  ./test_view  -p no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.bam CHROMOSOME_I
  ./compare_sam.pl no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.expected.sam
.. ok

test_view testing large (> 2Gbases) positions:
  ./test_view  -z -p longrefs/longref.tmp.sam.gz -x longrefs/longref.tmp.sam.gz.csi.otf -m 14 longrefs/longref.sam
  ./test_view  -p longrefs/longref.tmp.sam_ longrefs/longref.tmp.sam.gz
  ./compare_sam.pl longrefs/longref.sam longrefs/longref.tmp.sam_
test_view:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c longrefs/longref.tmp.sam.gz
.. ok

  ./test_view  -p longrefs/longref_itr.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003
  ./compare_sam.pl longrefs/longref_itr.expected.sam longrefs/longref_itr.tmp.sam
  ./test_view  -M -p longrefs/longref_multi.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 CHROMOSOME_I:10000000100-10000000110
  ./compare_sam.pl longrefs/longref_multi.expected.sam longrefs/longref_multi.tmp.sam
.. ok

test_view testing auxf#values.sam, ref auxf.fa:
  ./test_view -@4 -S -l0 -b auxf#values.sam > auxf#values.tmp.bam
  ./test_view -@4 auxf#values.tmp.bam > auxf#values.tmp.bam.sam_
  ./compare_sam.pl auxf#values.sam auxf#values.tmp.bam.sam_
  ./test_view -@4 -t auxf.fa -S -C -o VERSION=2.1 auxf#values.sam > auxf#values.tmp.cram
  ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_
  ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_
  ./test_view -@4 -t auxf.fa -C -o VERSION=3.0 auxf#values.tmp.bam > auxf#values.tmp.bam.cram
  ./test_view -@4 auxf#values.tmp.bam.cram > auxf#values.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t auxf.fa -S -l7 -C -o VERSION=3.1 -o archive auxf#values.sam > auxf#values.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_
  ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_
  ./test_view -@4 -t auxf.fa -S -l7 -C -o VERSION=4.0 -o archive auxf#values.sam > auxf#values.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_
  ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_
  ./test_view -@4 -i reference=auxf.fa auxf#values_java.cram > auxf#values_java.tmp.sam_
  ./compare_sam.pl -Baux -nomd auxf#values.sam auxf#values_java.tmp.sam_
.. ok

test_view testing c1#bounds.sam, ref c1.fa:
  ./test_view -@4 -S -l0 -b c1#bounds.sam > c1#bounds.tmp.bam
  ./test_view -@4 c1#bounds.tmp.bam > c1#bounds.tmp.bam.sam_
  ./compare_sam.pl c1#bounds.sam c1#bounds.tmp.bam.sam_
  ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#bounds.sam > c1#bounds.tmp.cram
  ./test_view -@4 -D c1#bounds.tmp.cram > c1#bounds.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.cram.sam_
  ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#bounds.tmp.bam > c1#bounds.tmp.bam.cram
  ./test_view -@4 c1#bounds.tmp.bam.cram > c1#bounds.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#clip.sam, ref c1.fa:
  ./test_view -@4 -S -l0 -b c1#clip.sam > c1#clip.tmp.bam
  ./test_view -@4 c1#clip.tmp.bam > c1#clip.tmp.bam.sam_
  ./compare_sam.pl c1#clip.sam c1#clip.tmp.bam.sam_
  ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#clip.sam > c1#clip.tmp.cram
  ./test_view -@4 -D c1#clip.tmp.cram > c1#clip.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.cram.sam_
  ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#clip.tmp.bam > c1#clip.tmp.bam.cram
  ./test_view -@4 c1#clip.tmp.bam.cram > c1#clip.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#noseq.sam, ref c1.fa:
  ./test_view -@4 -S -l0 -b c1#noseq.sam > c1#noseq.tmp.bam
  ./test_view -@4 c1#noseq.tmp.bam > c1#noseq.tmp.bam.sam_
  ./compare_sam.pl c1#noseq.sam c1#noseq.tmp.bam.sam_
  ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#noseq.sam > c1#noseq.tmp.cram
  ./test_view -@4 -D c1#noseq.tmp.cram > c1#noseq.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.cram.sam_
  ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#noseq.tmp.bam > c1#noseq.tmp.bam.cram
  ./test_view -@4 c1#noseq.tmp.bam.cram > c1#noseq.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#pad1.sam, ref c1.fa:
  ./test_view -@4 -S -l0 -b c1#pad1.sam > c1#pad1.tmp.bam
  ./test_view -@4 c1#pad1.tmp.bam > c1#pad1.tmp.bam.sam_
  ./compare_sam.pl c1#pad1.sam c1#pad1.tmp.bam.sam_
  ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad1.sam > c1#pad1.tmp.cram
  ./test_view -@4 -D c1#pad1.tmp.cram > c1#pad1.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.cram.sam_
  ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad1.tmp.bam > c1#pad1.tmp.bam.cram
  ./test_view -@4 c1#pad1.tmp.bam.cram > c1#pad1.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#pad2.sam, ref c1.fa:
  ./test_view -@4 -S -l0 -b c1#pad2.sam > c1#pad2.tmp.bam
  ./test_view -@4 c1#pad2.tmp.bam > c1#pad2.tmp.bam.sam_
  ./compare_sam.pl c1#pad2.sam c1#pad2.tmp.bam.sam_
  ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad2.sam > c1#pad2.tmp.cram
  ./test_view -@4 -D c1#pad2.tmp.cram > c1#pad2.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.cram.sam_
  ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad2.tmp.bam > c1#pad2.tmp.bam.cram
  ./test_view -@4 c1#pad2.tmp.bam.cram > c1#pad2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.bam.cram.bam.sam_
.. ok

test_view testing c1#pad3.sam, ref c1.fa:
  ./test_view -@4 -S -l0 -b c1#pad3.sam > c1#pad3.tmp.bam
  ./test_view -@4 c1#pad3.tmp.bam > c1#pad3.tmp.bam.sam_
  ./compare_sam.pl c1#pad3.sam c1#pad3.tmp.bam.sam_
  ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad3.sam > c1#pad3.tmp.cram
  ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_
  ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad3.tmp.bam > c1#pad3.tmp.bam.cram
  ./test_view -@4 c1#pad3.tmp.bam.cram > c1#pad3.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t c1.fa -S -l7 -C -o VERSION=3.1 -o archive c1#pad3.sam > c1#pad3.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_
  ./test_view -@4 -t c1.fa -S -l7 -C -o VERSION=4.0 -o archive c1#pad3.sam > c1#pad3.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_
.. ok

test_view testing c1#unknown.sam, ref c1.fa:
  ./test_view -@4 -S -l0 -b c1#unknown.sam > c1#unknown.tmp.bam
  ./test_view -@4 c1#unknown.tmp.bam > c1#unknown.tmp.bam.sam_
  ./compare_sam.pl c1#unknown.sam c1#unknown.tmp.bam.sam_
  ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#unknown.sam > c1#unknown.tmp.cram
  ./test_view -@4 -D c1#unknown.tmp.cram > c1#unknown.tmp.cram.sam_
  ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.cram.sam_
  ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#unknown.tmp.bam > c1#unknown.tmp.bam.cram
  ./test_view -@4 c1#unknown.tmp.bam.cram > c1#unknown.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.bam.cram.bam.sam_
.. ok

test_view testing c2#pad.sam, ref c2.fa:
  ./test_view -@4 -S -l0 -b c2#pad.sam > c2#pad.tmp.bam
  ./test_view -@4 c2#pad.tmp.bam > c2#pad.tmp.bam.sam_
  ./compare_sam.pl c2#pad.sam c2#pad.tmp.bam.sam_
  ./test_view -@4 -t c2.fa -S -C -o VERSION=2.1 c2#pad.sam > c2#pad.tmp.cram
  ./test_view -@4 -D c2#pad.tmp.cram > c2#pad.tmp.cram.sam_
  ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.cram.sam_
  ./test_view -@4 -t c2.fa -C -o VERSION=3.0 c2#pad.tmp.bam > c2#pad.tmp.bam.cram
  ./test_view -@4 c2#pad.tmp.bam.cram > c2#pad.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#1.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#1.sam > ce#1.tmp.bam
  ./test_view -@4 ce#1.tmp.bam > ce#1.tmp.bam.sam_
  ./compare_sam.pl ce#1.sam ce#1.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#1.sam > ce#1.tmp.cram
  ./test_view -@4 -D ce#1.tmp.cram > ce#1.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#1.tmp.bam > ce#1.tmp.bam.cram
  ./test_view -@4 ce#1.tmp.bam.cram > ce#1.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#1000.sam, ref ce.fa:
  ./test_view -@4 -S -b ce#1000.sam > ce#1000.tmp.bam
  ./test_view -@4 ce#1000.tmp.bam > ce#1000.tmp.bam.sam_
  ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_
  ./test_view -@4 -S -l0 -b ce#1000.sam > ce#1000.tmp.bam
  ./test_view -@4 ce#1000.tmp.bam > ce#1000.tmp.bam.sam_
  ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#1000.sam > ce#1000.tmp.cram
  ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l0 -C -o VERSION=3.0 ce#1000.sam > ce#1000.tmp.cram
  ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#1000.tmp.bam > ce#1000.tmp.bam.cram
  ./test_view -@4 ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.ms
  ./test_view -@4 ce#1000.tmp.bam.cram.ms > ce#1000.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o fast ce#1000.sam > ce#1000.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o normal ce#1000.sam > ce#1000.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o small ce#1000.sam > ce#1000.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#1000.sam > ce#1000.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#1000.sam > ce#1000.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_
.. ok

test_view testing ce#2.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#2.sam > ce#2.tmp.bam
  ./test_view -@4 ce#2.tmp.bam > ce#2.tmp.bam.sam_
  ./compare_sam.pl ce#2.sam ce#2.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#2.sam > ce#2.tmp.cram
  ./test_view -@4 -D ce#2.tmp.cram > ce#2.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#2.tmp.bam > ce#2.tmp.bam.cram
  ./test_view -@4 ce#2.tmp.bam.cram > ce#2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#5.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#5.sam > ce#5.tmp.bam
  ./test_view -@4 ce#5.tmp.bam > ce#5.tmp.bam.sam_
  ./compare_sam.pl ce#5.sam ce#5.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#5.sam > ce#5.tmp.cram
  ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#5.tmp.bam > ce#5.tmp.bam.cram
  ./test_view -@4 ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.ms
  ./test_view -@4 ce#5.tmp.bam.cram.ms > ce#5.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#5.sam > ce#5.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#5.sam > ce#5.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_
.. ok

test_view testing ce#5b.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#5b.sam > ce#5b.tmp.bam
  ./test_view -@4 ce#5b.tmp.bam > ce#5b.tmp.bam.sam_
  ./compare_sam.pl ce#5b.sam ce#5b.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#5b.sam > ce#5b.tmp.cram
  ./test_view -@4 -D ce#5b.tmp.cram > ce#5b.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#5b.tmp.bam > ce#5b.tmp.bam.cram
  ./test_view -@4 ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.ms
  ./test_view -@4 ce#5b.tmp.bam.cram.ms > ce#5b.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.sam_
  ./test_view -@4 -i reference=ce.fa ce#5b_java.cram > ce#5b_java.tmp.sam_
  ./compare_sam.pl -Baux -nomd ce#5b.sam ce#5b_java.tmp.sam_
.. ok

test_view testing ce#large_seq.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#large_seq.sam > ce#large_seq.tmp.bam
  ./test_view -@4 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.sam_
  ./compare_sam.pl ce#large_seq.sam ce#large_seq.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#large_seq.sam > ce#large_seq.tmp.cram
  ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.cram
  ./test_view -@4 ce#large_seq.tmp.bam.cram > ce#large_seq.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#large_seq.sam > ce#large_seq.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o fast ce#large_seq.sam > ce#large_seq.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o normal ce#large_seq.sam > ce#large_seq.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o small ce#large_seq.sam > ce#large_seq.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#large_seq.sam > ce#large_seq.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_
.. ok

test_view testing ce#supp.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#supp.sam > ce#supp.tmp.bam
  ./test_view -@4 ce#supp.tmp.bam > ce#supp.tmp.bam.sam_
  ./compare_sam.pl ce#supp.sam ce#supp.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#supp.sam > ce#supp.tmp.cram
  ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#supp.tmp.bam > ce#supp.tmp.bam.cram
  ./test_view -@4 ce#supp.tmp.bam.cram > ce#supp.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#supp.sam > ce#supp.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#supp.sam > ce#supp.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_
.. ok

test_view testing ce#tag_depadded.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#tag_depadded.sam > ce#tag_depadded.tmp.bam
  ./test_view -@4 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.sam_
  ./compare_sam.pl ce#tag_depadded.sam ce#tag_depadded.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#tag_depadded.sam > ce#tag_depadded.tmp.cram
  ./test_view -@4 -D ce#tag_depadded.tmp.cram > ce#tag_depadded.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.cram
  ./test_view -@4 ce#tag_depadded.tmp.bam.cram > ce#tag_depadded.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#tag_padded.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#tag_padded.sam > ce#tag_padded.tmp.bam
  ./test_view -@4 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.sam_
  ./compare_sam.pl ce#tag_padded.sam ce#tag_padded.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#tag_padded.sam > ce#tag_padded.tmp.cram
  ./test_view -@4 -D ce#tag_padded.tmp.cram > ce#tag_padded.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.cram
  ./test_view -@4 ce#tag_padded.tmp.bam.cram > ce#tag_padded.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.bam.cram.bam.sam_
.. ok

test_view testing ce#unmap.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#unmap.sam > ce#unmap.tmp.bam
  ./test_view -@4 ce#unmap.tmp.bam > ce#unmap.tmp.bam.sam_
  ./compare_sam.pl ce#unmap.sam ce#unmap.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap.sam > ce#unmap.tmp.cram
  ./test_view -@4 -D ce#unmap.tmp.cram > ce#unmap.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap.tmp.bam > ce#unmap.tmp.bam.cram
  ./test_view -@4 ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.ms
  ./test_view -@4 ce#unmap.tmp.bam.cram.ms > ce#unmap.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.sam_
.. ok

test_view testing ce#unmap1.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#unmap1.sam > ce#unmap1.tmp.bam
  ./test_view -@4 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.sam_
  ./compare_sam.pl ce#unmap1.sam ce#unmap1.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap1.sam > ce#unmap1.tmp.cram
  ./test_view -@4 -D ce#unmap1.tmp.cram > ce#unmap1.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.cram
  ./test_view -@4 ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.ms
  ./test_view -@4 ce#unmap1.tmp.bam.cram.ms > ce#unmap1.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.sam_
.. ok

test_view testing ce#unmap2.sam, ref ce.fa:
  ./test_view -@4 -S -l0 -b ce#unmap2.sam > ce#unmap2.tmp.bam
  ./test_view -@4 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.sam_
  ./compare_sam.pl ce#unmap2.sam ce#unmap2.tmp.bam.sam_
  ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap2.sam > ce#unmap2.tmp.cram
  ./test_view -@4 -D ce#unmap2.tmp.cram > ce#unmap2.tmp.cram.sam_
  ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.cram.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.cram
  ./test_view -@4 ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.ms
  ./test_view -@4 ce#unmap2.tmp.bam.cram.ms > ce#unmap2.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.sam_
.. ok

test_view testing md#1.sam, ref md.fa:
  ./test_view -@4 -S -l0 -b md#1.sam > md#1.tmp.bam
  ./test_view -@4 md#1.tmp.bam > md#1.tmp.bam.sam_
  ./compare_sam.pl md#1.sam md#1.tmp.bam.sam_
  ./test_view -@4 -t md.fa -S -C -o VERSION=2.1 md#1.sam > md#1.tmp.cram
  ./test_view -@4 -D md#1.tmp.cram > md#1.tmp.cram.sam_
  ./compare_sam.pl  md#1.sam md#1.tmp.cram.sam_
  ./test_view -@4 -t md.fa -C -o VERSION=3.0 md#1.tmp.bam > md#1.tmp.bam.cram
  ./test_view -@4 md#1.tmp.bam.cram > md#1.tmp.bam.cram.bam.sam_
  ./compare_sam.pl  md#1.sam md#1.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#blank.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#blank.sam > xx#blank.tmp.bam
  ./test_view -@4 xx#blank.tmp.bam > xx#blank.tmp.bam.sam_
  ./compare_sam.pl xx#blank.sam xx#blank.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#blank.sam > xx#blank.tmp.cram
  ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#blank.tmp.bam > xx#blank.tmp.bam.cram
  ./test_view -@4 xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.ms
  ./test_view -@4 xx#blank.tmp.bam.cram.ms > xx#blank.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#blank.sam > xx#blank.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#blank.sam > xx#blank.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_
.. ok

test_view testing xx#large_aux.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#large_aux.sam > xx#large_aux.tmp.bam
  ./test_view -@4 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.sam_
  ./compare_sam.pl xx#large_aux.sam xx#large_aux.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#large_aux.sam > xx#large_aux.tmp.cram
  ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.cram
  ./test_view -@4 xx#large_aux.tmp.bam.cram > xx#large_aux.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#large_aux.sam > xx#large_aux.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o fast xx#large_aux.sam > xx#large_aux.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o normal xx#large_aux.sam > xx#large_aux.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o small xx#large_aux.sam > xx#large_aux.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#large_aux.sam > xx#large_aux.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_
  ./test_view -@4 -i reference=xx.fa xx#large_aux_java.cram > xx#large_aux_java.tmp.sam_
[W::sanitise_SQ_lines] Header @SQ length mismatch for ref xx, 30 vs 20
  ./compare_sam.pl -Baux -nomd xx#large_aux.sam xx#large_aux_java.tmp.sam_
.. ok

test_view testing xx#large_aux2.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#large_aux2.sam > xx#large_aux2.tmp.bam
  ./test_view -@4 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.sam_
  ./compare_sam.pl xx#large_aux2.sam xx#large_aux2.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#large_aux2.sam > xx#large_aux2.tmp.cram
  ./test_view -@4 -D xx#large_aux2.tmp.cram > xx#large_aux2.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.cram
  ./test_view -@4 xx#large_aux2.tmp.bam.cram > xx#large_aux2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#MD.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#MD.sam > xx#MD.tmp.bam
  ./test_view -@4 xx#MD.tmp.bam > xx#MD.tmp.bam.sam_
  ./compare_sam.pl xx#MD.sam xx#MD.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#MD.sam > xx#MD.tmp.cram
  ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#MD.tmp.bam > xx#MD.tmp.bam.cram
  ./test_view -@4 xx#MD.tmp.bam.cram > xx#MD.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#MD.sam > xx#MD.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#MD.sam > xx#MD.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_
.. ok

test_view testing xx#MD2.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#MD2.sam > xx#MD2.tmp.bam
  ./test_view -@4 xx#MD2.tmp.bam > xx#MD2.tmp.bam.sam_
  ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#MD2.sam > xx#MD2.tmp.cram
  ./test_view -@4 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#MD2.tmp.bam > xx#MD2.tmp.bam.cram
  ./test_view -@4 xx#MD2.tmp.bam.cram > xx#MD2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#minimal.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#minimal.sam > xx#minimal.tmp.bam
  ./test_view -@4 xx#minimal.tmp.bam > xx#minimal.tmp.bam.sam_
  ./compare_sam.pl xx#minimal.sam xx#minimal.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#minimal.sam > xx#minimal.tmp.cram
  ./test_view -@4 -D xx#minimal.tmp.cram > xx#minimal.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#minimal.tmp.bam > xx#minimal.tmp.bam.cram
  ./test_view -@4 xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.ms
  ./test_view -@4 xx#minimal.tmp.bam.cram.ms > xx#minimal.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.sam_
.. ok

test_view testing xx#pair.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#pair.sam > xx#pair.tmp.bam
  ./test_view -@4 xx#pair.tmp.bam > xx#pair.tmp.bam.sam_
  ./compare_sam.pl xx#pair.sam xx#pair.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#pair.sam > xx#pair.tmp.cram
  ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#pair.tmp.bam > xx#pair.tmp.bam.cram
  ./test_view -@4 xx#pair.tmp.bam.cram > xx#pair.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#pair.sam > xx#pair.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#pair.sam > xx#pair.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_
.. ok

test_view testing xx#repeated.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#repeated.sam > xx#repeated.tmp.bam
  ./test_view -@4 xx#repeated.tmp.bam > xx#repeated.tmp.bam.sam_
  ./compare_sam.pl xx#repeated.sam xx#repeated.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#repeated.sam > xx#repeated.tmp.cram
  ./test_view -@4 -D xx#repeated.tmp.cram > xx#repeated.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#repeated.tmp.bam > xx#repeated.tmp.bam.cram
  ./test_view -@4 xx#repeated.tmp.bam.cram > xx#repeated.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#rg.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#rg.sam > xx#rg.tmp.bam
  ./test_view -@4 xx#rg.tmp.bam > xx#rg.tmp.bam.sam_
  ./compare_sam.pl xx#rg.sam xx#rg.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#rg.sam > xx#rg.tmp.cram
  ./test_view -@4 -D xx#rg.tmp.cram > xx#rg.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#rg.tmp.bam > xx#rg.tmp.bam.cram
  ./test_view -@4 xx#rg.tmp.bam.cram > xx#rg.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.bam.cram.bam.sam_
.. ok

test_view testing xx#tlen.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#tlen.sam > xx#tlen.tmp.bam
  ./test_view -@4 xx#tlen.tmp.bam > xx#tlen.tmp.bam.sam_
  ./compare_sam.pl xx#tlen.sam xx#tlen.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#tlen.sam > xx#tlen.tmp.cram
  ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#tlen.tmp.bam > xx#tlen.tmp.bam.cram
  ./test_view -@4 xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.ms
  ./test_view -@4 xx#tlen.tmp.bam.cram.ms > xx#tlen.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#tlen.sam > xx#tlen.tmp.cram
[W::cram_set_voption] CRAM version 3.1 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#tlen.sam > xx#tlen.tmp.cram
[W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change.
This is a technology demonstration that should not be used for archival data.
  ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_
.. ok

test_view testing xx#tlen2.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#tlen2.sam > xx#tlen2.tmp.bam
  ./test_view -@4 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.sam_
  ./compare_sam.pl xx#tlen2.sam xx#tlen2.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#tlen2.sam > xx#tlen2.tmp.cram
  ./test_view -@4 -D xx#tlen2.tmp.cram > xx#tlen2.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.cram
  ./test_view -@4 xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.ms
  ./test_view -@4 xx#tlen2.tmp.bam.cram.ms > xx#tlen2.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.sam_
.. ok

test_view testing xx#triplet.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#triplet.sam > xx#triplet.tmp.bam
  ./test_view -@4 xx#triplet.tmp.bam > xx#triplet.tmp.bam.sam_
  ./compare_sam.pl xx#triplet.sam xx#triplet.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#triplet.sam > xx#triplet.tmp.cram
  ./test_view -@4 -D xx#triplet.tmp.cram > xx#triplet.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#triplet.tmp.bam > xx#triplet.tmp.bam.cram
  ./test_view -@4 xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.bam.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.ms
  ./test_view -@4 xx#triplet.tmp.bam.cram.ms > xx#triplet.tmp.bam.cram.sam_
  ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.sam_
.. ok

test_view testing xx#unsorted.sam, ref xx.fa:
  ./test_view -@4 -S -l0 -b xx#unsorted.sam > xx#unsorted.tmp.bam
  ./test_view -@4 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.sam_
  ./compare_sam.pl xx#unsorted.sam xx#unsorted.tmp.bam.sam_
  ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#unsorted.sam > xx#unsorted.tmp.cram
  ./test_view -@4 -D xx#unsorted.tmp.cram > xx#unsorted.tmp.cram.sam_
  ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.cram.sam_
  ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.cram
  ./test_view -@4 xx#unsorted.tmp.bam.cram > xx#unsorted.tmp.bam.cram.bam.sam_
  ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.bam.cram.bam.sam_
.. ok

test_view testing region queries:
  ./test_view -@4 -i reference=ce.fa range.cram CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp
  ./compare_sam.pl range.tmp range.out
  ./test_view -@4 range.bam CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp
  ./compare_sam.pl range.tmp range.out
.. ok

test_view testing BAM files with absent @SQ lines:
  ./test_view -@4 -p no_hdr_sq_1.tmp.sam no_hdr_sq_1.bam
  ./compare_sam.pl no_hdr_sq_1.tmp.sam no_hdr_sq_1.expected.sam
  ./test_view -@4 -p no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.bam CHROMOSOME_I
  ./compare_sam.pl no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.expected.sam
.. ok

test_view testing large (> 2Gbases) positions:
  ./test_view -@4 -z -p longrefs/longref.tmp.sam.gz -x longrefs/longref.tmp.sam.gz.csi.otf -m 14 longrefs/longref.sam
  ./test_view -@4 -p longrefs/longref.tmp.sam_ longrefs/longref.tmp.sam.gz
  ./compare_sam.pl longrefs/longref.sam longrefs/longref.tmp.sam_
test_view:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_index -c longrefs/longref.tmp.sam.gz
.. ok

  ./test_view -@4 -p longrefs/longref_itr.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003
  ./compare_sam.pl longrefs/longref_itr.expected.sam longrefs/longref_itr.tmp.sam
  ./test_view -@4 -M -p longrefs/longref_multi.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 CHROMOSOME_I:10000000100-10000000110
  ./compare_sam.pl longrefs/longref_multi.expected.sam longrefs/longref_multi.tmp.sam
.. ok


test_MD testing xx#MD.sam, ref xx.fa:
  ./test_view -o store_nm=1 -o store_md=1 -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram
  ./test_view -i decode_md=0 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_
  ./compare_sam.pl xx#MD.sam xx#MD.tmp.cram.sam_
  ./test_view -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram
  ./test_view -i decode_md=0 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_
  ./compare_sam.pl -partialmd=2 xx#MD.sam xx#MD.tmp.cram.sam_
  Checking for MD/NM in xx#MD.sam
  ./test_view -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram
  ./test_view -i decode_md=1 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_
  ./compare_sam.pl -partialmd=1 xx#MD.sam xx#MD.tmp.cram.sam_
.. ok


test_MD testing xx#MD2.sam, ref xx.fa:
  ./test_view -o store_nm=1 -o store_md=1 -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram
  ./test_view -i decode_md=0 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_
  ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.cram.sam_
  ./test_view -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram
  ./test_view -i decode_md=0 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_
  ./compare_sam.pl -partialmd=2 xx#MD2.sam xx#MD2.tmp.cram.sam_
  ./test_view -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram
  ./test_view -i decode_md=1 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_
  ./compare_sam.pl -partialmd=1 xx#MD2.sam xx#MD2.tmp.cram.sam_
.. ok

test_vcf_api:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-vcf-api /tmp/7pMqBKF13b/test-vcf-api.bcf
[W::bcf_record_check] Bad BCF record at 1:1: No REF allele
[E::bcf_index_build3] TBI indices for BCF files are not supported
[E::idx_find_and_load] Could not retrieve index file for '/tmp/7pMqBKF13b/test-vcf-api.bcf'
.. ok

test_bcf2vcf:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/tabix/vcf_file.bcf
.. ok

test_vcf_sweep:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-vcf-sweep /tmp/7pMqBKF13b/test-vcf-api.bcf
.. ok

test_vcf_various:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/htsfile -ch /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-vcf-hdr-in.vcf
.. ok

test_vcf_various:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/htsfile -c /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/formatcols.vcf
.. ok

test_vcf_various:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/htsfile -c /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/noroundtrip.vcf
.. ok

test_vcf_various:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/htsfile -c /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/formatmissing.vcf
.. ok

test_vcf_various:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/htsfile -c /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/vcf_meta_meta.vcf
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 955245916
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 1510667547
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 1137096879
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 179070559
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 607701024
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 596843491
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 1093630782
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 1027124228
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 1218388769
.. ok

test-bcf-sr:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-sr.pl -t /tmp/7pMqBKF13b -s 135397934
.. ok

test_command:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-bcf-translate -
.. ok

test_convert_padded_header:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -t ce.fa -C /tmp/7pMqBKF13b/headernul0.bam
.. ok

test_convert_padded_header:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -t ce.fa -C /tmp/7pMqBKF13b/headernul1.bam
.. ok

test_convert_padded_header:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_view -t ce.fa -C /tmp/7pMqBKF13b/headernul678.bam
.. ok

test_rebgzip: Alternate zlib/deflate library detected
test_rebgzip:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/bgzip -I /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/bgziptest.txt.tmp.gz.gzi -c -g /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/bgziptest.txt
.. ok

test-logging:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test-logging.pl
.. ok

test_plugin_loading:
	HTS_PATH=/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1 /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/with-shlib.sh /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/htsfile https://localhost:99999/invalid_port
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn01.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn01.sam -o -
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.sam -o -
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -a -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn01.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn01.sam -o -
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -a -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.sam -o -
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -e -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn01.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn01.sam -o -
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -e -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.sam -o -
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -r -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02-r.sam -o -
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -a -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02_exp.sam -o -
.. ok

test_realn:
	/builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/test_realn -f /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02.fa -i /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/test/realn02_exp-a.sam -o -
.. ok


Number of tests:
    total   .. 172
    passed  .. 172
    failed  .. 0

+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: htslib-1.15.1-7.fc42.s390x
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.UhTd4s
+ umask 022
+ cd /builddir/build/BUILD/htslib-1.15.1-build
+ cd htslib-1.15.1
+ DOCDIR=/builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/doc/htslib
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/doc/htslib
+ cp -pr /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/NEWS /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/doc/htslib
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.zMkjo7
+ umask 022
+ cd /builddir/build/BUILD/htslib-1.15.1-build
+ cd htslib-1.15.1
+ LICENSEDIR=/builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/licenses/htslib
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/licenses/htslib
+ cp -pr /builddir/build/BUILD/htslib-1.15.1-build/htslib-1.15.1/LICENSE /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT/usr/share/licenses/htslib
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: htslib = 1.15.1-7.fc42 htslib(s390-64) = 1.15.1-7.fc42 libhts.so.3()(64bit)
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.2)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libcrypto.so.3()(64bit) libcrypto.so.3(OPENSSL_3.0.0)(64bit) libcurl.so.4()(64bit) libhts.so.3()(64bit) liblzma.so.5()(64bit) liblzma.so.5(XZ_5.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libz.so.1()(64bit) rtld(GNU_HASH)
Processing files: htslib-devel-1.15.1-7.fc42.s390x
Provides: htslib-devel = 1.15.1-7.fc42 htslib-devel(s390-64) = 1.15.1-7.fc42 pkgconfig(htslib) = 1.15.1
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/pkg-config libhts.so.3()(64bit)
Processing files: htslib-tools-1.15.1-7.fc42.s390x
Provides: htslib-tools = 1.15.1-7.fc42 htslib-tools(s390-64) = 1.15.1-7.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.2)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) liblzma.so.5()(64bit) liblzma.so.5(XZ_5.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.29)(64bit) libz.so.1()(64bit) rtld(GNU_HASH)
Processing files: htslib-debugsource-1.15.1-7.fc42.s390x
Provides: htslib-debugsource = 1.15.1-7.fc42 htslib-debugsource(s390-64) = 1.15.1-7.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: htslib-debuginfo-1.15.1-7.fc42.s390x
Provides: debuginfo(build-id) = 72d8d2b15c4baa264c2b28964fc8141f0470a21c debuginfo(build-id) = a2d61c4a1b5e5d7ad94fad2479b17b2fda4f6a67 debuginfo(build-id) = c94737a3821bc1ff907ca6f06328588e2e544f01 debuginfo(build-id) = dda8487818e6d87b8bd16ce5fc1e1b125ac286cf debuginfo(build-id) = ec224c1cb7491e2ec3b7a63842184fbf33df4046 htslib-debuginfo = 1.15.1-7.fc42 htslib-debuginfo(s390-64) = 1.15.1-7.fc42 libhts.so.1.15.1-1.15.1-7.fc42.s390x.debug()(64bit)
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: htslib-debugsource(s390-64) = 1.15.1-7.fc42
Processing files: htslib-tools-debuginfo-1.15.1-7.fc42.s390x
Provides: debuginfo(build-id) = 1cdf715346feb449f44d96660c97f97b97e8fbe7 debuginfo(build-id) = 56d497fcffe65480586b968228463211807b43cb debuginfo(build-id) = bc304553908c67fe61cf2792b77a35953ff19402 htslib-tools-debuginfo = 1.15.1-7.fc42 htslib-tools-debuginfo(s390-64) = 1.15.1-7.fc42
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: htslib-debugsource(s390-64) = 1.15.1-7.fc42
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/htslib-1.15.1-build/BUILDROOT
Wrote: /builddir/build/RPMS/htslib-debuginfo-1.15.1-7.fc42.s390x.rpm
Wrote: /builddir/build/RPMS/htslib-tools-1.15.1-7.fc42.s390x.rpm
Wrote: /builddir/build/RPMS/htslib-tools-debuginfo-1.15.1-7.fc42.s390x.rpm
Wrote: /builddir/build/RPMS/htslib-1.15.1-7.fc42.s390x.rpm
Wrote: /builddir/build/RPMS/htslib-devel-1.15.1-7.fc42.s390x.rpm
Wrote: /builddir/build/RPMS/htslib-debugsource-1.15.1-7.fc42.s390x.rpm
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.fzoDuX
+ umask 022
+ cd /builddir/build/BUILD/htslib-1.15.1-build
+ test -d /builddir/build/BUILD/htslib-1.15.1-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/htslib-1.15.1-build
+ rm -rf /builddir/build/BUILD/htslib-1.15.1-build
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild htslib-1.15.1-7.fc42.src.rpm
Finish: build phase for htslib-1.15.1-7.fc42.src.rpm
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-s390x-1727385887.696194/root/var/log/dnf5.log
INFO: Done(/var/lib/copr-rpmbuild/results/htslib-1.15.1-7.fc42.src.rpm) Config(child) 6 minutes 15 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": "htslib-debugsource",
            "epoch": null,
            "version": "1.15.1",
            "release": "7.fc42",
            "arch": "s390x"
        },
        {
            "name": "htslib-debuginfo",
            "epoch": null,
            "version": "1.15.1",
            "release": "7.fc42",
            "arch": "s390x"
        },
        {
            "name": "htslib",
            "epoch": null,
            "version": "1.15.1",
            "release": "7.fc42",
            "arch": "src"
        },
        {
            "name": "htslib",
            "epoch": null,
            "version": "1.15.1",
            "release": "7.fc42",
            "arch": "s390x"
        },
        {
            "name": "htslib-tools",
            "epoch": null,
            "version": "1.15.1",
            "release": "7.fc42",
            "arch": "s390x"
        },
        {
            "name": "htslib-devel",
            "epoch": null,
            "version": "1.15.1",
            "release": "7.fc42",
            "arch": "s390x"
        },
        {
            "name": "htslib-tools-debuginfo",
            "epoch": null,
            "version": "1.15.1",
            "release": "7.fc42",
            "arch": "s390x"
        }
    ]
}
RPMResults finished