Warning: Permanently added '2620:52:6:1161:dead:beef:cafe:c151' (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/10066103-epel-9-ppc64le --chroot epel-9-ppc64le


Version: 1.6
PID: 2473
Logging PID: 2475
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': False,
 'build_id': 10066103,
 'buildroot_pkgs': [],
 'chroot': 'epel-9-ppc64le',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': 'e09d35abfce8fffc295a0fcc8191ba4c17c19afc',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/ron/bioinformatics/bcftools',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'bcftools',
 'package_version': '1.23-1',
 'project_dirname': 'bioinformatics',
 'project_name': 'bioinformatics',
 'project_owner': 'ron',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/ron/bioinformatics/epel-9-ppc64le/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None}],
 'sandbox': 'ron/bioinformatics--ron',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'storage': 0,
 'submitter': 'ron',
 'tags': ['arch_power9'],
 'task_id': '10066103-epel-9-ppc64le',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/ron/bioinformatics/bcftools /var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/ron/bioinformatics/bcftools', '/var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools'...

Running: git checkout e09d35abfce8fffc295a0fcc8191ba4c17c19afc --

cmd: ['git', 'checkout', 'e09d35abfce8fffc295a0fcc8191ba4c17c19afc', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools
rc: 0
stdout: 
stderr: Note: switching to 'e09d35abfce8fffc295a0fcc8191ba4c17c19afc'.

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 e09d35a automatic import of bcftools

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools
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 bcftools-1.23.tar.bz2
INFO: Reading stdout from command: curl --help all
INFO: Calling: curl -H Pragma: -o bcftools-1.23.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/ron/bioinformatics/bcftools/bcftools-1.23.tar.bz2/md5/a33e895594ff53ed68eded2e0b742540/bcftools-1.23.tar.bz2
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 7942k  100 7942k    0     0  12.0M      0 --:--:-- --:--:-- --:--:-- 12.0M
INFO: Reading stdout from command: md5sum bcftools-1.23.tar.bz2

tail: /var/lib/copr-rpmbuild/main.log: file truncated
Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1769502178.609159 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 6.6 starting (python version = 3.14.2, NVR = mock-6.6-1.fc43), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1769502178.609159 -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-lnaty1xi/bcftools/bcftools.spec)  Config(rhel+epel-9-ppc64le)
Start: clean chroot
Finish: clean chroot
Mock Version: 6.6
INFO: Mock Version: 6.6
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-ppc64le-bootstrap-1769502178.609159/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
INFO: Guessed host environment type: unknown
INFO: Using container image: registry.access.redhat.com/ubi9/ubi
INFO: Pulling image: registry.access.redhat.com/ubi9/ubi
INFO: Tagging container image as mock-bootstrap-e98b51c5-c35a-4c70-a796-f8c14ede17b5
INFO: Checking that bcd7d46e5c0dd1b6fd6f9b44ecfafe2c5f49c1cd180c5fb4b4332203269b1697 image matches host's architecture
INFO: Copy content of container bcd7d46e5c0dd1b6fd6f9b44ecfafe2c5f49c1cd180c5fb4b4332203269b1697 to /var/lib/mock/rhel+epel-9-ppc64le-bootstrap-1769502178.609159/root
INFO: mounting bcd7d46e5c0dd1b6fd6f9b44ecfafe2c5f49c1cd180c5fb4b4332203269b1697 with podman image mount
INFO: image bcd7d46e5c0dd1b6fd6f9b44ecfafe2c5f49c1cd180c5fb4b4332203269b1697 as /var/lib/containers/storage/overlay/69fd9b0c33d7673e83121827a635d8fc1b00df4355c4052ef06db4d71387d1f4/merged
INFO: umounting image bcd7d46e5c0dd1b6fd6f9b44ecfafe2c5f49c1cd180c5fb4b4332203269b1697 (/var/lib/containers/storage/overlay/69fd9b0c33d7673e83121827a635d8fc1b00df4355c4052ef06db4d71387d1f4/merged) with podman image umount
INFO: Removing image mock-bootstrap-e98b51c5-c35a-4c70-a796-f8c14ede17b5
INFO: Package manager dnf4 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/rhel+epel-9-ppc64le-1769502178.609159/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 dnf4 detected and used (direct choice)
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.16.1.3-39.el9.ppc64le
  python3-dnf-4.14.0-31.el9.noarch
  python3-dnf-plugins-core-4.3.0-24.el9_7.noarch
  yum-4.14.0-31.el9.noarch
Start: installing minimal buildroot with dnf
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

This system is not registered with an entitlement server. You can use subscription-manager to register.

Copr repository                                  11 kB/s | 4.8 kB     00:00    
Red Hat Enterprise Linux - BaseOS                50 MB/s |  59 MB     00:01    
Red Hat Enterprise Linux - AppStream             61 MB/s |  71 MB     00:01    
Red Hat Enterprise Linux - CodeReady Linux Buil  27 MB/s |  13 MB     00:00    
Extra Packages for Enterprise Linux 9 - ppc64le 340 kB/s |  20 MB     00:59    
Dependencies resolved.
================================================================================
 Package                    Arch    Version                     Repo       Size
================================================================================
Installing:
 bash                       ppc64le 5.1.8-9.el9                 baseos    1.7 M
 bzip2                      ppc64le 1.0.8-10.el9_5              baseos     60 k
 coreutils                  ppc64le 8.32-39.el9                 baseos    1.2 M
 cpio                       ppc64le 2.13-16.el9                 baseos    286 k
 diffutils                  ppc64le 3.7-12.el9                  baseos    417 k
 epel-rpm-macros            noarch  9-17.el9                    epel       15 k
 findutils                  ppc64le 1:4.8.0-7.el9               baseos    589 k
 gawk                       ppc64le 5.1.0-6.el9                 baseos    1.0 M
 glibc-minimal-langpack     ppc64le 2.34-231.el9_7.2            baseos     22 k
 grep                       ppc64le 3.6-5.el9                   baseos    281 k
 gzip                       ppc64le 1.12-1.el9                  baseos    172 k
 info                       ppc64le 6.7-15.el9                  baseos    256 k
 patch                      ppc64le 2.7.6-16.el9                appstream 140 k
 redhat-release             ppc64le 9.7-0.7.el9                 baseos     53 k
 redhat-rpm-config          noarch  210-1.el9                   appstream  70 k
 rpm-build                  ppc64le 4.16.1.3-39.el9             appstream  67 k
 sed                        ppc64le 4.8-9.el9                   baseos    315 k
 tar                        ppc64le 2:1.34-9.el9_7              baseos    916 k
 unzip                      ppc64le 6.0-59.el9                  baseos    186 k
 util-linux                 ppc64le 2.37.4-21.el9               baseos    2.3 M
 which                      ppc64le 2.21-30.el9_6               baseos     42 k
 xz                         ppc64le 5.2.5-8.el9_0               baseos    238 k
Installing dependencies:
 alternatives               ppc64le 1.24-2.el9                  baseos     43 k
 ansible-srpm-macros        noarch  1-16.el9                    epel       21 k
 audit-libs                 ppc64le 3.1.5-7.el9                 baseos    137 k
 basesystem                 noarch  11-13.el9                   baseos    8.0 k
 binutils                   ppc64le 2.35.2-67.el9_7.1           baseos    5.0 M
 binutils-gold              ppc64le 2.35.2-67.el9_7.1           baseos    1.0 M
 bzip2-libs                 ppc64le 1.0.8-10.el9_5              baseos     46 k
 ca-certificates            noarch  2025.2.80_v9.0.305-91.el9   baseos    1.0 M
 coreutils-common           ppc64le 8.32-39.el9                 baseos    2.0 M
 cracklib                   ppc64le 2.9.6-27.el9                baseos    100 k
 cracklib-dicts             ppc64le 2.9.6-27.el9                baseos    3.6 M
 crypto-policies            noarch  20250905-1.git377cc42.el9_7 baseos     90 k
 curl                       ppc64le 7.76.1-34.el9               baseos    295 k
 cyrus-sasl-lib             ppc64le 2.1.27-22.el9               baseos    856 k
 debugedit                  ppc64le 5.0-11.el9                  appstream  81 k
 dwz                        ppc64le 0.16-1.el9                  appstream 140 k
 ed                         ppc64le 1.14.2-12.el9               baseos     81 k
 efi-srpm-macros            noarch  6-4.el9                     appstream  21 k
 elfutils                   ppc64le 0.193-1.el9                 baseos    601 k
 elfutils-debuginfod-client ppc64le 0.193-1.el9                 baseos     46 k
 elfutils-default-yama-scope
                            noarch  0.193-1.el9                 baseos    9.7 k
 elfutils-libelf            ppc64le 0.193-1.el9                 baseos    211 k
 elfutils-libs              ppc64le 0.193-1.el9                 baseos    305 k
 file                       ppc64le 5.39-16.el9                 baseos     52 k
 file-libs                  ppc64le 5.39-16.el9                 baseos    604 k
 filesystem                 ppc64le 3.16-5.el9                  baseos    4.8 M
 fonts-srpm-macros          noarch  1:2.0.5-7.el9.1             appstream  29 k
 forge-srpm-macros          noarch  0.4.0-1.el9                 epel       19 k
 fpc-srpm-macros            noarch  1.3-7.el9                   epel      7.5 k
 gdb-minimal                ppc64le 16.3-2.el9                  appstream 4.6 M
 gdbm-libs                  ppc64le 1:1.23-1.el9                baseos     64 k
 ghc-srpm-macros            noarch  1.5.0-6.el9                 appstream 9.0 k
 ghc-srpm-macros-epel       noarch  1.9.1-1.el9                 epel      7.5 k
 glibc                      ppc64le 2.34-231.el9_7.2            baseos    2.7 M
 glibc-common               ppc64le 2.34-231.el9_7.2            baseos    323 k
 glibc-gconv-extra          ppc64le 2.34-231.el9_7.2            baseos    1.7 M
 gmp                        ppc64le 1:6.2.0-13.el9              baseos    305 k
 go-srpm-macros             noarch  3.6.0-12.el9_7              appstream  27 k
 go-srpm-macros-epel        noarch  3.8.0-1.el9                 epel       26 k
 groff-base                 ppc64le 1.22.4-10.el9               baseos    1.1 M
 json-c                     ppc64le 0.14-11.el9                 baseos     48 k
 kernel-srpm-macros         noarch  1.0-14.el9                  appstream  14 k
 keyutils-libs              ppc64le 1.6.3-1.el9                 baseos     35 k
 krb5-libs                  ppc64le 1.21.1-8.el9_6              baseos    846 k
 libacl                     ppc64le 2.3.1-4.el9                 baseos     26 k
 libarchive                 ppc64le 3.5.3-6.el9_6               baseos    454 k
 libattr                    ppc64le 2.5.1-3.el9                 baseos     21 k
 libblkid                   ppc64le 2.37.4-21.el9               baseos    125 k
 libbrotli                  ppc64le 1.0.9-7.el9_5               baseos    339 k
 libcap                     ppc64le 2.48-10.el9                 baseos     74 k
 libcap-ng                  ppc64le 0.8.2-7.el9                 baseos     37 k
 libcom_err                 ppc64le 1.46.5-8.el9                baseos     27 k
 libcurl                    ppc64le 7.76.1-34.el9               baseos    314 k
 libdb                      ppc64le 5.3.28-57.el9_6             baseos    817 k
 libeconf                   ppc64le 0.4.1-4.el9                 baseos     32 k
 libevent                   ppc64le 2.1.12-8.el9_4              baseos    281 k
 libfdisk                   ppc64le 2.37.4-21.el9               baseos    170 k
 libffi                     ppc64le 3.4.2-8.el9                 baseos     40 k
 libgcc                     ppc64le 11.5.0-11.el9               baseos     74 k
 libgcrypt                  ppc64le 1.10.0-11.el9               baseos    599 k
 libgomp                    ppc64le 11.5.0-11.el9               baseos    269 k
 libgpg-error               ppc64le 1.42-5.el9                  baseos    229 k
 libidn2                    ppc64le 2.3.0-7.el9                 baseos    108 k
 libmount                   ppc64le 2.37.4-21.el9               baseos    153 k
 libnghttp2                 ppc64le 1.43.0-6.el9                baseos     84 k
 libpkgconf                 ppc64le 1.7.3-10.el9                baseos     42 k
 libpsl                     ppc64le 0.21.1-5.el9                baseos     68 k
 libpwquality               ppc64le 1.4.4-8.el9                 baseos    125 k
 librtas                    ppc64le 2.0.6-1.el9                 baseos     84 k
 libselinux                 ppc64le 3.6-3.el9                   baseos    100 k
 libsemanage                ppc64le 3.6-5.el9_6                 baseos    133 k
 libsepol                   ppc64le 3.6-3.el9                   baseos    366 k
 libsigsegv                 ppc64le 2.13-4.el9                  baseos     31 k
 libsmartcols               ppc64le 2.37.4-21.el9               baseos     70 k
 libssh                     ppc64le 0.10.4-17.el9_7             baseos    238 k
 libssh-config              noarch  0.10.4-17.el9_7             baseos    8.1 k
 libstdc++                  ppc64le 11.5.0-11.el9               baseos    837 k
 libtasn1                   ppc64le 4.16.0-9.el9                baseos     82 k
 libtool-ltdl               ppc64le 2.4.6-46.el9                baseos     41 k
 libunistring               ppc64le 0.9.10-15.el9               baseos    507 k
 libutempter                ppc64le 1.2.1-6.el9                 baseos     30 k
 libuuid                    ppc64le 2.37.4-21.el9               baseos     32 k
 libverto                   ppc64le 0.3.2-3.el9                 baseos     25 k
 libxcrypt                  ppc64le 4.4.18-3.el9                baseos    133 k
 libxml2                    ppc64le 2.9.13-14.el9_7             baseos    823 k
 libzstd                    ppc64le 1.5.5-1.el9                 baseos    322 k
 lua-libs                   ppc64le 5.4.4-4.el9                 baseos    149 k
 lua-srpm-macros            noarch  1-6.el9                     appstream  10 k
 lz4-libs                   ppc64le 1.9.3-5.el9                 baseos     88 k
 mpfr                       ppc64le 4.1.0-7.el9                 baseos    324 k
 ncurses                    ppc64le 6.2-12.20210508.el9         baseos    413 k
 ncurses-base               noarch  6.2-12.20210508.el9         baseos     96 k
 ncurses-libs               ppc64le 6.2-12.20210508.el9         baseos    370 k
 ocaml-srpm-macros          noarch  6-6.el9                     appstream 9.1 k
 openblas-srpm-macros       noarch  2-11.el9                    appstream 8.6 k
 openldap                   ppc64le 2.6.8-4.el9                 baseos    322 k
 openssl                    ppc64le 1:3.5.1-5.el9_7             baseos    1.5 M
 openssl-fips-provider      ppc64le 3.0.7-8.el9                 baseos    9.2 k
 openssl-fips-provider-so   ppc64le 3.0.7-8.el9                 baseos    563 k
 openssl-libs               ppc64le 1:3.5.1-5.el9_7             baseos    2.4 M
 p11-kit                    ppc64le 0.25.3-3.el9_5              baseos    535 k
 p11-kit-trust              ppc64le 0.25.3-3.el9_5              baseos    157 k
 pam                        ppc64le 1.5.1-26.el9_6              baseos    662 k
 pcre                       ppc64le 8.44-4.el9                  baseos    203 k
 pcre2                      ppc64le 10.40-6.el9                 baseos    237 k
 pcre2-syntax               noarch  10.40-6.el9                 baseos    144 k
 perl-AutoLoader            noarch  5.74-481.1.el9_6            appstream  21 k
 perl-B                     ppc64le 1.80-481.1.el9_6            appstream 183 k
 perl-Carp                  noarch  1.50-460.el9                appstream  31 k
 perl-Class-Struct          noarch  0.66-481.1.el9_6            appstream  22 k
 perl-Data-Dumper           ppc64le 2.174-462.el9               appstream  59 k
 perl-Digest                noarch  1.19-4.el9                  appstream  29 k
 perl-Digest-MD5            ppc64le 2.58-4.el9                  appstream  40 k
 perl-Encode                ppc64le 4:3.08-462.el9              appstream 1.7 M
 perl-Errno                 ppc64le 1.30-481.1.el9_6            appstream  14 k
 perl-Exporter              noarch  5.74-461.el9                appstream  34 k
 perl-Fcntl                 ppc64le 1.13-481.1.el9_6            appstream  20 k
 perl-File-Basename         noarch  2.85-481.1.el9_6            appstream  17 k
 perl-File-Path             noarch  2.18-4.el9                  appstream  38 k
 perl-File-Temp             noarch  1:0.231.100-4.el9           appstream  63 k
 perl-File-stat             noarch  1.09-481.1.el9_6            appstream  17 k
 perl-FileHandle            noarch  2.03-481.1.el9_6            appstream  15 k
 perl-Getopt-Long           noarch  1:2.52-4.el9                appstream  64 k
 perl-Getopt-Std            noarch  1.12-481.1.el9_6            appstream  15 k
 perl-HTTP-Tiny             noarch  0.076-462.el9               appstream  57 k
 perl-IO                    ppc64le 1.43-481.1.el9_6            appstream  89 k
 perl-IO-Socket-IP          noarch  0.41-5.el9                  appstream  45 k
 perl-IO-Socket-SSL         noarch  2.073-2.el9                 appstream 221 k
 perl-IPC-Open3             noarch  1.21-481.1.el9_6            appstream  22 k
 perl-MIME-Base64           ppc64le 3.16-4.el9                  appstream  35 k
 perl-Mozilla-CA            noarch  20200520-6.el9              appstream  14 k
 perl-Net-SSLeay            ppc64le 1.94-3.el9                  appstream 423 k
 perl-POSIX                 ppc64le 1.94-481.1.el9_6            appstream  98 k
 perl-PathTools             ppc64le 3.78-461.el9                appstream  93 k
 perl-Pod-Escapes           noarch  1:1.07-460.el9              appstream  22 k
 perl-Pod-Perldoc           noarch  3.28.01-461.el9             appstream  92 k
 perl-Pod-Simple            noarch  1:3.42-4.el9                appstream 229 k
 perl-Pod-Usage             noarch  4:2.01-4.el9                appstream  43 k
 perl-Scalar-List-Utils     ppc64le 4:1.56-462.el9              appstream  78 k
 perl-SelectSaver           noarch  1.02-481.1.el9_6            appstream  11 k
 perl-Socket                ppc64le 4:2.031-4.el9               appstream  59 k
 perl-Storable              ppc64le 1:3.21-460.el9              appstream 101 k
 perl-Symbol                noarch  1.08-481.1.el9_6            appstream  14 k
 perl-Term-ANSIColor        noarch  5.01-461.el9                appstream  51 k
 perl-Term-Cap              noarch  1.17-460.el9                appstream  24 k
 perl-Text-ParseWords       noarch  3.30-460.el9                appstream  18 k
 perl-Text-Tabs+Wrap        noarch  2013.0523-460.el9           appstream  25 k
 perl-Time-Local            noarch  2:1.300-7.el9               appstream  37 k
 perl-URI                   noarch  5.09-3.el9                  appstream 125 k
 perl-base                  noarch  2.27-481.1.el9_6            appstream  16 k
 perl-constant              noarch  1.33-461.el9                appstream  25 k
 perl-if                    noarch  0.60.800-481.1.el9_6        appstream  14 k
 perl-interpreter           ppc64le 4:5.32.1-481.1.el9_6        appstream  70 k
 perl-libnet                noarch  3.13-4.el9                  appstream 134 k
 perl-libs                  ppc64le 4:5.32.1-481.1.el9_6        appstream 2.3 M
 perl-mro                   ppc64le 1.23-481.1.el9_6            appstream  28 k
 perl-overload              noarch  1.31-481.1.el9_6            appstream  45 k
 perl-overloading           noarch  0.02-481.1.el9_6            appstream  12 k
 perl-parent                noarch  1:0.238-460.el9             appstream  16 k
 perl-podlators             noarch  1:4.14-460.el9              appstream 118 k
 perl-srpm-macros           noarch  1-41.el9                    appstream 9.4 k
 perl-subs                  noarch  1.03-481.1.el9_6            appstream  11 k
 perl-vars                  noarch  1.05-481.1.el9_6            appstream  13 k
 pkgconf                    ppc64le 1.7.3-10.el9                baseos     45 k
 pkgconf-m4                 noarch  1.7.3-10.el9                baseos     16 k
 pkgconf-pkg-config         ppc64le 1.7.3-10.el9                baseos     12 k
 popt                       ppc64le 1.18-8.el9                  baseos     73 k
 publicsuffix-list-dafsa    noarch  20210518-3.el9              baseos     59 k
 pyproject-srpm-macros      noarch  1.16.2-1.el9                appstream  14 k
 python-srpm-macros         noarch  3.9-54.el9                  appstream  18 k
 qt5-srpm-macros            noarch  5.15.9-1.el9                appstream 9.1 k
 qt6-srpm-macros            noarch  6.6.2-1.el9                 epel      8.7 k
 readline                   ppc64le 8.1-4.el9                   baseos    231 k
 rpm                        ppc64le 4.16.1.3-39.el9             baseos    534 k
 rpm-build-libs             ppc64le 4.16.1.3-39.el9             baseos     96 k
 rpm-libs                   ppc64le 4.16.1.3-39.el9             baseos    351 k
 rpmautospec-rpm-macros     noarch  0.8.1-11.el9                epel       11 k
 rust-srpm-macros           noarch  17-4.el9                    appstream  11 k
 rust-srpm-macros-epel      noarch  26.3-1.el9                  epel       10 k
 setup                      noarch  2.13.7-10.el9               baseos    150 k
 shadow-utils               ppc64le 2:4.9-15.el9                baseos    1.2 M
 sqlite-libs                ppc64le 3.34.1-9.el9_7              baseos    731 k
 systemd-libs               ppc64le 252-55.el9_7.7              baseos    708 k
 tzdata                     noarch  2025c-1.el9                 baseos    904 k
 util-linux-core            ppc64le 2.37.4-21.el9               baseos    488 k
 xz-libs                    ppc64le 5.2.5-8.el9_0               baseos    117 k
 zip                        ppc64le 3.0-35.el9                  baseos    276 k
 zlib                       ppc64le 1.2.11-40.el9               baseos    104 k
 zstd                       ppc64le 1.5.5-1.el9                 baseos    407 k

Transaction Summary
================================================================================
Install  211 Packages

Total download size: 73 M
Installed size: 276 M
Downloading Packages:
(1/211): basesystem-11-13.el9.noarch.rpm         28 kB/s | 8.0 kB     00:00    
(2/211): cracklib-2.9.6-27.el9.ppc64le.rpm      348 kB/s | 100 kB     00:00    
(3/211): cpio-2.13-16.el9.ppc64le.rpm           936 kB/s | 286 kB     00:00    
(4/211): ed-1.14.2-12.el9.ppc64le.rpm           3.3 MB/s |  81 kB     00:00    
(5/211): diffutils-3.7-12.el9.ppc64le.rpm       7.8 MB/s | 417 kB     00:00    
(6/211): grep-3.6-5.el9.ppc64le.rpm             8.7 MB/s | 281 kB     00:00    
(7/211): gawk-5.1.0-6.el9.ppc64le.rpm            14 MB/s | 1.0 MB     00:00    
(8/211): info-6.7-15.el9.ppc64le.rpm            5.7 MB/s | 256 kB     00:00    
(9/211): groff-base-1.22.4-10.el9.ppc64le.rpm    12 MB/s | 1.1 MB     00:00    
(10/211): json-c-0.14-11.el9.ppc64le.rpm        1.9 MB/s |  48 kB     00:00    
(11/211): cracklib-dicts-2.9.6-27.el9.ppc64le.r  17 MB/s | 3.6 MB     00:00    
(12/211): libcap-ng-0.8.2-7.el9.ppc64le.rpm     996 kB/s |  37 kB     00:00    
(13/211): libattr-2.5.1-3.el9.ppc64le.rpm       352 kB/s |  21 kB     00:00    
(14/211): libidn2-2.3.0-7.el9.ppc64le.rpm       3.6 MB/s | 108 kB     00:00    
(15/211): libpsl-0.21.1-5.el9.ppc64le.rpm       1.5 MB/s |  68 kB     00:00    
(16/211): libgpg-error-1.42-5.el9.ppc64le.rpm   2.6 MB/s | 229 kB     00:00    
(17/211): libsigsegv-2.13-4.el9.ppc64le.rpm     1.1 MB/s |  31 kB     00:00    
(18/211): libpwquality-1.4.4-8.el9.ppc64le.rpm  2.2 MB/s | 125 kB     00:00    
(19/211): libutempter-1.2.1-6.el9.ppc64le.rpm   1.4 MB/s |  30 kB     00:00    
(20/211): libunistring-0.9.10-15.el9.ppc64le.rp  10 MB/s | 507 kB     00:00    
(21/211): libverto-0.3.2-3.el9.ppc64le.rpm      539 kB/s |  25 kB     00:00    
(22/211): libxcrypt-4.4.18-3.el9.ppc64le.rpm    3.0 MB/s | 133 kB     00:00    
(23/211): lz4-libs-1.9.3-5.el9.ppc64le.rpm      3.0 MB/s |  88 kB     00:00    
(24/211): mpfr-4.1.0-7.el9.ppc64le.rpm          8.8 MB/s | 324 kB     00:00    
(25/211): popt-1.18-8.el9.ppc64le.rpm           2.9 MB/s |  73 kB     00:00    
(26/211): publicsuffix-list-dafsa-20210518-3.el 2.5 MB/s |  59 kB     00:00    
(27/211): sed-4.8-9.el9.ppc64le.rpm              11 MB/s | 315 kB     00:00    
(28/211): xz-5.2.5-8.el9_0.ppc64le.rpm          8.6 MB/s | 238 kB     00:00    
(29/211): readline-8.1-4.el9.ppc64le.rpm        4.7 MB/s | 231 kB     00:00    
(30/211): xz-libs-5.2.5-8.el9_0.ppc64le.rpm     4.9 MB/s | 117 kB     00:00    
(31/211): gzip-1.12-1.el9.ppc64le.rpm           7.0 MB/s | 172 kB     00:00    
(32/211): keyutils-libs-1.6.3-1.el9.ppc64le.rpm 1.4 MB/s |  35 kB     00:00    
(33/211): pkgconf-m4-1.7.3-10.el9.noarch.rpm    422 kB/s |  16 kB     00:00    
(34/211): libpkgconf-1.7.3-10.el9.ppc64le.rpm   663 kB/s |  42 kB     00:00    
(35/211): pkgconf-1.7.3-10.el9.ppc64le.rpm      725 kB/s |  45 kB     00:00    
(36/211): pkgconf-pkg-config-1.7.3-10.el9.ppc64 535 kB/s |  12 kB     00:00    
(37/211): zip-3.0-35.el9.ppc64le.rpm            8.6 MB/s | 276 kB     00:00    
(38/211): gmp-6.2.0-13.el9.ppc64le.rpm          9.8 MB/s | 305 kB     00:00    
(39/211): libffi-3.4.2-8.el9.ppc64le.rpm        973 kB/s |  40 kB     00:00    
(40/211): lua-libs-5.4.4-4.el9.ppc64le.rpm      6.0 MB/s | 149 kB     00:00    
(41/211): zlib-1.2.11-40.el9.ppc64le.rpm        4.4 MB/s | 104 kB     00:00    
(42/211): file-5.39-16.el9.ppc64le.rpm          946 kB/s |  52 kB     00:00    
(43/211): bash-5.1.8-9.el9.ppc64le.rpm           23 MB/s | 1.7 MB     00:00    
(44/211): libacl-2.3.1-4.el9.ppc64le.rpm        836 kB/s |  26 kB     00:00    
(45/211): file-libs-5.39-16.el9.ppc64le.rpm     6.5 MB/s | 604 kB     00:00    
(46/211): libevent-2.1.12-8.el9_4.ppc64le.rpm   7.4 MB/s | 281 kB     00:00    
(47/211): bzip2-1.0.8-10.el9_5.ppc64le.rpm      2.0 MB/s |  60 kB     00:00    
(48/211): setup-2.13.7-10.el9.noarch.rpm        2.6 MB/s | 150 kB     00:00    
(49/211): bzip2-libs-1.0.8-10.el9_5.ppc64le.rpm 2.1 MB/s |  46 kB     00:00    
(50/211): findutils-4.8.0-7.el9.ppc64le.rpm      10 MB/s | 589 kB     00:00    
(51/211): filesystem-3.16-5.el9.ppc64le.rpm      50 MB/s | 4.8 MB     00:00    
(52/211): gdbm-libs-1.23-1.el9.ppc64le.rpm      820 kB/s |  64 kB     00:00    
(53/211): libbrotli-1.0.9-7.el9_5.ppc64le.rpm   7.5 MB/s | 339 kB     00:00    
(54/211): libeconf-0.4.1-4.el9.ppc64le.rpm      1.2 MB/s |  32 kB     00:00    
(55/211): libnghttp2-1.43.0-6.el9.ppc64le.rpm   3.8 MB/s |  84 kB     00:00    
(56/211): libgcrypt-1.10.0-11.el9.ppc64le.rpm    18 MB/s | 599 kB     00:00    
(57/211): librtas-2.0.6-1.el9.ppc64le.rpm       3.8 MB/s |  84 kB     00:00    
(58/211): p11-kit-0.25.3-3.el9_5.ppc64le.rpm     18 MB/s | 535 kB     00:00    
(59/211): p11-kit-trust-0.25.3-3.el9_5.ppc64le. 3.3 MB/s | 157 kB     00:00    
(60/211): pcre2-10.40-6.el9.ppc64le.rpm         7.3 MB/s | 237 kB     00:00    
(61/211): pcre-8.44-4.el9.ppc64le.rpm           3.3 MB/s | 203 kB     00:00    
(62/211): pcre2-syntax-10.40-6.el9.noarch.rpm   4.4 MB/s | 144 kB     00:00    
(63/211): alternatives-1.24-2.el9.ppc64le.rpm   1.7 MB/s |  43 kB     00:00    
(64/211): libfdisk-2.37.4-21.el9.ppc64le.rpm    7.2 MB/s | 170 kB     00:00    
(65/211): libselinux-3.6-3.el9.ppc64le.rpm      4.4 MB/s | 100 kB     00:00    
(66/211): coreutils-common-8.32-39.el9.ppc64le.  28 MB/s | 2.0 MB     00:00    
(67/211): libmount-2.37.4-21.el9.ppc64le.rpm    2.2 MB/s | 153 kB     00:00    
(68/211): libsemanage-3.6-5.el9_6.ppc64le.rpm   5.0 MB/s | 133 kB     00:00    
(69/211): libzstd-1.5.5-1.el9.ppc64le.rpm        11 MB/s | 322 kB     00:00    
(70/211): libtool-ltdl-2.4.6-46.el9.ppc64le.rpm 1.2 MB/s |  41 kB     00:00    
(71/211): openldap-2.6.8-4.el9.ppc64le.rpm       10 MB/s | 322 kB     00:00    
(72/211): util-linux-2.37.4-21.el9.ppc64le.rpm   39 MB/s | 2.3 MB     00:00    
(73/211): libsmartcols-2.37.4-21.el9.ppc64le.rp 658 kB/s |  70 kB     00:00    
(74/211): util-linux-core-2.37.4-21.el9.ppc64le  10 MB/s | 488 kB     00:00    
(75/211): zstd-1.5.5-1.el9.ppc64le.rpm           12 MB/s | 407 kB     00:00    
(76/211): coreutils-8.32-39.el9.ppc64le.rpm      29 MB/s | 1.2 MB     00:00    
(77/211): libblkid-2.37.4-21.el9.ppc64le.rpm    5.3 MB/s | 125 kB     00:00    
(78/211): krb5-libs-1.21.1-8.el9_6.ppc64le.rpm   18 MB/s | 846 kB     00:00    
(79/211): libuuid-2.37.4-21.el9.ppc64le.rpm     1.4 MB/s |  32 kB     00:00    
(80/211): libdb-5.3.28-57.el9_6.ppc64le.rpm      15 MB/s | 817 kB     00:00    
(81/211): libtasn1-4.16.0-9.el9.ppc64le.rpm     1.3 MB/s |  82 kB     00:00    
(82/211): libarchive-3.5.3-6.el9_6.ppc64le.rpm   11 MB/s | 454 kB     00:00    
(83/211): pam-1.5.1-26.el9_6.ppc64le.rpm         20 MB/s | 662 kB     00:00    
(84/211): audit-libs-3.1.5-7.el9.ppc64le.rpm    5.4 MB/s | 137 kB     00:00    
(85/211): crypto-policies-20250905-1.git377cc42 3.6 MB/s |  90 kB     00:00    
(86/211): which-2.21-30.el9_6.ppc64le.rpm       939 kB/s |  42 kB     00:00    
(87/211): curl-7.76.1-34.el9.ppc64le.rpm        9.9 MB/s | 295 kB     00:00    
(88/211): cyrus-sasl-lib-2.1.27-22.el9.ppc64le.  23 MB/s | 856 kB     00:00    
(89/211): elfutils-0.193-1.el9.ppc64le.rpm       14 MB/s | 601 kB     00:00    
(90/211): elfutils-debuginfod-client-0.193-1.el 957 kB/s |  46 kB     00:00    
(91/211): elfutils-default-yama-scope-0.193-1.e 285 kB/s | 9.7 kB     00:00    
(92/211): elfutils-libelf-0.193-1.el9.ppc64le.r 5.1 MB/s | 211 kB     00:00    
(93/211): elfutils-libs-0.193-1.el9.ppc64le.rpm 8.8 MB/s | 305 kB     00:00    
(94/211): libcap-2.48-10.el9.ppc64le.rpm        2.2 MB/s |  74 kB     00:00    
(95/211): libcom_err-1.46.5-8.el9.ppc64le.rpm   654 kB/s |  27 kB     00:00    
(96/211): libgcc-11.5.0-11.el9.ppc64le.rpm      2.4 MB/s |  74 kB     00:00    
(97/211): libcurl-7.76.1-34.el9.ppc64le.rpm     8.5 MB/s | 314 kB     00:00    
(98/211): libgomp-11.5.0-11.el9.ppc64le.rpm     9.3 MB/s | 269 kB     00:00    
(99/211): libstdc++-11.5.0-11.el9.ppc64le.rpm    19 MB/s | 837 kB     00:00    
(100/211): libsepol-3.6-3.el9.ppc64le.rpm       6.7 MB/s | 366 kB     00:00    
(101/211): ncurses-6.2-12.20210508.el9.ppc64le. 8.4 MB/s | 413 kB     00:00    
(102/211): ncurses-base-6.2-12.20210508.el9.noa 3.0 MB/s |  96 kB     00:00    
(103/211): ncurses-libs-6.2-12.20210508.el9.ppc 6.4 MB/s | 370 kB     00:00    
(104/211): openssl-fips-provider-3.0.7-8.el9.pp 199 kB/s | 9.2 kB     00:00    
(105/211): openssl-fips-provider-so-3.0.7-8.el9  13 MB/s | 563 kB     00:00    
(106/211): rpm-build-libs-4.16.1.3-39.el9.ppc64 3.8 MB/s |  96 kB     00:00    
(107/211): rpm-4.16.1.3-39.el9.ppc64le.rpm       16 MB/s | 534 kB     00:00    
(108/211): rpm-libs-4.16.1.3-39.el9.ppc64le.rpm  10 MB/s | 351 kB     00:00    
(109/211): unzip-6.0-59.el9.ppc64le.rpm         6.0 MB/s | 186 kB     00:00    
(110/211): shadow-utils-4.9-15.el9.ppc64le.rpm   25 MB/s | 1.2 MB     00:00    
(111/211): glibc-common-2.34-231.el9_7.2.ppc64l 9.7 MB/s | 323 kB     00:00    
(112/211): glibc-minimal-langpack-2.34-231.el9_ 912 kB/s |  22 kB     00:00    
(113/211): glibc-gconv-extra-2.34-231.el9_7.2.p  32 MB/s | 1.7 MB     00:00    
(114/211): glibc-2.34-231.el9_7.2.ppc64le.rpm    25 MB/s | 2.7 MB     00:00    
(115/211): redhat-release-9.7-0.7.el9.ppc64le.r 1.6 MB/s |  53 kB     00:00    
(116/211): sqlite-libs-3.34.1-9.el9_7.ppc64le.r  18 MB/s | 731 kB     00:00    
(117/211): libxml2-2.9.13-14.el9_7.ppc64le.rpm   22 MB/s | 823 kB     00:00    
(118/211): ca-certificates-2025.2.80_v9.0.305-9  23 MB/s | 1.0 MB     00:00    
(119/211): systemd-libs-252-55.el9_7.7.ppc64le.  18 MB/s | 708 kB     00:00    
(120/211): libssh-0.10.4-17.el9_7.ppc64le.rpm   7.0 MB/s | 238 kB     00:00    
(121/211): tzdata-2025c-1.el9.noarch.rpm         18 MB/s | 904 kB     00:00    
(122/211): libssh-config-0.10.4-17.el9_7.noarch 190 kB/s | 8.1 kB     00:00    
(123/211): binutils-gold-2.35.2-67.el9_7.1.ppc6  19 MB/s | 1.0 MB     00:00    
(124/211): tar-1.34-9.el9_7.ppc64le.rpm          18 MB/s | 916 kB     00:00    
(125/211): binutils-2.35.2-67.el9_7.1.ppc64le.r  40 MB/s | 5.0 MB     00:00    
(126/211): openssl-3.5.1-5.el9_7.ppc64le.rpm     19 MB/s | 1.5 MB     00:00    
(127/211): openssl-libs-3.5.1-5.el9_7.ppc64le.r  25 MB/s | 2.4 MB     00:00    
(128/211): perl-Exporter-5.74-461.el9.noarch.rp 720 kB/s |  34 kB     00:00    
(129/211): perl-Encode-3.08-462.el9.ppc64le.rpm  22 MB/s | 1.7 MB     00:00    
(130/211): perl-File-Temp-0.231.100-4.el9.noarc 1.5 MB/s |  63 kB     00:00    
(131/211): perl-MIME-Base64-3.16-4.el9.ppc64le. 1.0 MB/s |  35 kB     00:00    
(132/211): perl-Socket-2.031-4.el9.ppc64le.rpm  813 kB/s |  59 kB     00:00    
(133/211): perl-Term-Cap-1.17-460.el9.noarch.rp 439 kB/s |  24 kB     00:00    
(134/211): perl-parent-0.238-460.el9.noarch.rpm 588 kB/s |  16 kB     00:00    
(135/211): perl-Time-Local-1.300-7.el9.noarch.r 1.2 MB/s |  37 kB     00:00    
(136/211): perl-Mozilla-CA-20200520-6.el9.noarc 114 kB/s |  14 kB     00:00    
(137/211): perl-srpm-macros-1-41.el9.noarch.rpm 339 kB/s | 9.4 kB     00:00    
(138/211): rust-srpm-macros-17-4.el9.noarch.rpm 402 kB/s |  11 kB     00:00    
(139/211): ghc-srpm-macros-1.5.0-6.el9.noarch.r 350 kB/s | 9.0 kB     00:00    
(140/211): lua-srpm-macros-1-6.el9.noarch.rpm   378 kB/s |  10 kB     00:00    
(141/211): patch-2.7.6-16.el9.ppc64le.rpm       3.9 MB/s | 140 kB     00:00    
(142/211): perl-Digest-MD5-2.58-4.el9.ppc64le.r 1.6 MB/s |  40 kB     00:00    
(143/211): perl-IO-Socket-IP-0.41-5.el9.noarch. 1.8 MB/s |  45 kB     00:00    
(144/211): perl-Pod-Escapes-1.07-460.el9.noarch 970 kB/s |  22 kB     00:00    
(145/211): perl-Pod-Simple-3.42-4.el9.noarch.rp 9.3 MB/s | 229 kB     00:00    
(146/211): perl-Term-ANSIColor-5.01-461.el9.noa 2.3 MB/s |  51 kB     00:00    
(147/211): perl-Text-ParseWords-3.30-460.el9.no 744 kB/s |  18 kB     00:00    
(148/211): perl-URI-5.09-3.el9.noarch.rpm       4.7 MB/s | 125 kB     00:00    
(149/211): perl-constant-1.33-461.el9.noarch.rp 972 kB/s |  25 kB     00:00    
(150/211): perl-Text-Tabs+Wrap-2013.0523-460.el 537 kB/s |  25 kB     00:00    
(151/211): openblas-srpm-macros-2-11.el9.noarch 387 kB/s | 8.6 kB     00:00    
(152/211): perl-Data-Dumper-2.174-462.el9.ppc64 2.1 MB/s |  59 kB     00:00    
(153/211): perl-File-Path-2.18-4.el9.noarch.rpm 1.7 MB/s |  38 kB     00:00    
(154/211): perl-Pod-Perldoc-3.28.01-461.el9.noa 3.3 MB/s |  92 kB     00:00    
(155/211): perl-Pod-Usage-2.01-4.el9.noarch.rpm 1.6 MB/s |  43 kB     00:00    
(156/211): perl-libnet-3.13-4.el9.noarch.rpm    4.7 MB/s | 134 kB     00:00    
(157/211): perl-podlators-4.14-460.el9.noarch.r 4.9 MB/s | 118 kB     00:00    
(158/211): ocaml-srpm-macros-6-6.el9.noarch.rpm 385 kB/s | 9.1 kB     00:00    
(159/211): fonts-srpm-macros-2.0.5-7.el9.1.noar 674 kB/s |  29 kB     00:00    
(160/211): perl-Digest-1.19-4.el9.noarch.rpm    1.2 MB/s |  29 kB     00:00    
(161/211): perl-Getopt-Long-2.52-4.el9.noarch.r 3.0 MB/s |  64 kB     00:00    
(162/211): perl-Carp-1.50-460.el9.noarch.rpm    528 kB/s |  31 kB     00:00    
(163/211): perl-Storable-3.21-460.el9.ppc64le.r 4.2 MB/s | 101 kB     00:00    
(164/211): perl-PathTools-3.78-461.el9.ppc64le. 3.5 MB/s |  93 kB     00:00    
(165/211): perl-HTTP-Tiny-0.076-462.el9.noarch. 1.5 MB/s |  57 kB     00:00    
(166/211): qt5-srpm-macros-5.15.9-1.el9.noarch. 203 kB/s | 9.1 kB     00:00    
(167/211): perl-Scalar-List-Utils-1.56-462.el9. 2.6 MB/s |  78 kB     00:00    
(168/211): pyproject-srpm-macros-1.16.2-1.el9.n 632 kB/s |  14 kB     00:00    
(169/211): python-srpm-macros-3.9-54.el9.noarch 542 kB/s |  18 kB     00:00    
(170/211): perl-IO-Socket-SSL-2.073-2.el9.noarc 4.6 MB/s | 221 kB     00:00    
(171/211): perl-AutoLoader-5.74-481.1.el9_6.noa 839 kB/s |  21 kB     00:00    
(172/211): perl-B-1.80-481.1.el9_6.ppc64le.rpm  7.1 MB/s | 183 kB     00:00    
(173/211): perl-Class-Struct-0.66-481.1.el9_6.n 920 kB/s |  22 kB     00:00    
(174/211): perl-Fcntl-1.13-481.1.el9_6.ppc64le. 857 kB/s |  20 kB     00:00    
(175/211): perl-File-stat-1.09-481.1.el9_6.noar 631 kB/s |  17 kB     00:00    
(176/211): perl-File-Basename-2.85-481.1.el9_6. 261 kB/s |  17 kB     00:00    
(177/211): perl-FileHandle-2.03-481.1.el9_6.noa 347 kB/s |  15 kB     00:00    
(178/211): perl-Errno-1.30-481.1.el9_6.ppc64le. 106 kB/s |  14 kB     00:00    
(179/211): perl-IO-1.43-481.1.el9_6.ppc64le.rpm 2.2 MB/s |  89 kB     00:00    
(180/211): perl-Getopt-Std-1.12-481.1.el9_6.noa 213 kB/s |  15 kB     00:00    
(181/211): perl-POSIX-1.94-481.1.el9_6.ppc64le. 3.6 MB/s |  98 kB     00:00    
(182/211): perl-SelectSaver-1.02-481.1.el9_6.no 515 kB/s |  11 kB     00:00    
(183/211): perl-IPC-Open3-1.21-481.1.el9_6.noar 609 kB/s |  22 kB     00:00    
(184/211): perl-if-0.60.800-481.1.el9_6.noarch. 596 kB/s |  14 kB     00:00    
(185/211): perl-base-2.27-481.1.el9_6.noarch.rp 302 kB/s |  16 kB     00:00    
(186/211): perl-interpreter-5.32.1-481.1.el9_6. 2.4 MB/s |  70 kB     00:00    
(187/211): perl-Symbol-1.08-481.1.el9_6.noarch. 215 kB/s |  14 kB     00:00    
(188/211): perl-mro-1.23-481.1.el9_6.ppc64le.rp 1.2 MB/s |  28 kB     00:00    
(189/211): perl-overload-1.31-481.1.el9_6.noarc 1.7 MB/s |  45 kB     00:00    
(190/211): perl-overloading-0.02-481.1.el9_6.no 472 kB/s |  12 kB     00:00    
(191/211): perl-subs-1.03-481.1.el9_6.noarch.rp 486 kB/s |  11 kB     00:00    
(192/211): perl-libs-5.32.1-481.1.el9_6.ppc64le  30 MB/s | 2.3 MB     00:00    
(193/211): efi-srpm-macros-6-4.el9.noarch.rpm   587 kB/s |  21 kB     00:00    
(194/211): perl-vars-1.05-481.1.el9_6.noarch.rp 291 kB/s |  13 kB     00:00    
(195/211): redhat-rpm-config-210-1.el9.noarch.r 2.3 MB/s |  70 kB     00:00    
(196/211): debugedit-5.0-11.el9.ppc64le.rpm     3.4 MB/s |  81 kB     00:00    
(197/211): rpm-build-4.16.1.3-39.el9.ppc64le.rp 1.1 MB/s |  67 kB     00:00    
(198/211): dwz-0.16-1.el9.ppc64le.rpm           5.4 MB/s | 140 kB     00:00    
(199/211): kernel-srpm-macros-1.0-14.el9.noarch 641 kB/s |  14 kB     00:00    
(200/211): go-srpm-macros-3.6.0-12.el9_7.noarch 1.2 MB/s |  27 kB     00:00    
(201/211): perl-Net-SSLeay-1.94-3.el9.ppc64le.r  14 MB/s | 423 kB     00:00    
(202/211): gdb-minimal-16.3-2.el9.ppc64le.rpm    28 MB/s | 4.6 MB     00:00    
[MIRROR] ansible-srpm-macros-1-16.el9.noarch.rpm: Curl error (28): Timeout was reached for https://dl.fedoraproject.org/pub/epel/9/Everything/ppc64le/Packages/a/ansible-srpm-macros-1-16.el9.noarch.rpm [Failed to connect to dl.fedoraproject.org port 443: Connection timed out]
[MIRROR] epel-rpm-macros-9-17.el9.noarch.rpm: Curl error (28): Timeout was reached for https://dl.fedoraproject.org/pub/epel/9/Everything/ppc64le/Packages/e/epel-rpm-macros-9-17.el9.noarch.rpm [Failed to connect to dl.fedoraproject.org port 443: Connection timed out]
[MIRROR] forge-srpm-macros-0.4.0-1.el9.noarch.rpm: Curl error (28): Timeout was reached for https://dl.fedoraproject.org/pub/epel/9/Everything/ppc64le/Packages/f/forge-srpm-macros-0.4.0-1.el9.noarch.rpm [Failed to connect to dl.fedoraproject.org port 443: Connection timed out]
(203/211): ansible-srpm-macros-1-16.el9.noarch. 720  B/s |  21 kB     00:29    
(204/211): epel-rpm-macros-9-17.el9.noarch.rpm  522  B/s |  15 kB     00:29    
(205/211): fpc-srpm-macros-1.3-7.el9.noarch.rpm 101 kB/s | 7.5 kB     00:00    
(206/211): ghc-srpm-macros-epel-1.9.1-1.el9.noa 101 kB/s | 7.5 kB     00:00    
(207/211): forge-srpm-macros-0.4.0-1.el9.noarch 675  B/s |  19 kB     00:29    
(208/211): go-srpm-macros-epel-3.8.0-1.el9.noar 360 kB/s |  26 kB     00:00    
(209/211): qt6-srpm-macros-6.6.2-1.el9.noarch.r 118 kB/s | 8.7 kB     00:00    
(210/211): rpmautospec-rpm-macros-0.8.1-11.el9. 148 kB/s |  11 kB     00:00    
(211/211): rust-srpm-macros-epel-26.3-1.el9.noa 136 kB/s |  10 kB     00:00    
--------------------------------------------------------------------------------
Total                                           2.2 MB/s |  73 MB     00:32     
Red Hat Enterprise Linux - BaseOS               3.5 MB/s | 3.6 kB     00:00    
Importing GPG key 0xFD431D51:
 Userid     : "Red Hat, Inc. (release key 2) <security@redhat.com>"
 Fingerprint: 567E 347A D004 4ADE 55BA 8A5F 199E 2F91 FD43 1D51
 From       : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release
Key imported successfully
Importing GPG key 0x5A6340B3:
 Userid     : "Red Hat, Inc. (auxiliary key 3) <security@redhat.com>"
 Fingerprint: 7E46 2425 8C40 6535 D56D 6F13 5054 E4A4 5A63 40B3
 From       : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release
Key imported successfully
Extra Packages for Enterprise Linux 9 - ppc64le 1.6 MB/s | 1.6 kB     00:00    
Importing GPG key 0x3228467C:
 Userid     : "Fedora (epel9) <epel@fedoraproject.org>"
 Fingerprint: FF8A D134 4597 106E CE81 3B91 8A38 72BF 3228 467C
 From       : /usr/share/distribution-gpg-keys/epel/RPM-GPG-KEY-EPEL-9
Key imported successfully
Running transaction check
Transaction check succeeded.
Running transaction test
Transaction test succeeded.
Running transaction
  Running scriptlet: filesystem-3.16-5.el9.ppc64le                          1/1 
  Preparing        :                                                        1/1 
  Installing       : rust-srpm-macros-17-4.el9.noarch                     1/211 
  Installing       : redhat-release-9.7-0.7.el9.ppc64le                   2/211 
  Installing       : setup-2.13.7-10.el9.noarch                           3/211 
warning: /etc/hosts created as /etc/hosts.rpmnew

  Running scriptlet: setup-2.13.7-10.el9.noarch                           3/211 
  Installing       : filesystem-3.16-5.el9.ppc64le                        4/211 
  Installing       : basesystem-11-13.el9.noarch                          5/211 
  Installing       : rust-srpm-macros-epel-26.3-1.el9.noarch              6/211 
  Installing       : qt6-srpm-macros-6.6.2-1.el9.noarch                   7/211 
  Installing       : ghc-srpm-macros-epel-1.9.1-1.el9.noarch              8/211 
  Installing       : fpc-srpm-macros-1.3-7.el9.noarch                     9/211 
  Installing       : ansible-srpm-macros-1-16.el9.noarch                 10/211 
  Installing       : qt5-srpm-macros-5.15.9-1.el9.noarch                 11/211 
  Installing       : ocaml-srpm-macros-6-6.el9.noarch                    12/211 
  Installing       : openblas-srpm-macros-2-11.el9.noarch                13/211 
  Installing       : ghc-srpm-macros-1.5.0-6.el9.noarch                  14/211 
  Installing       : perl-srpm-macros-1-41.el9.noarch                    15/211 
  Installing       : libssh-config-0.10.4-17.el9_7.noarch                16/211 
  Installing       : tzdata-2025c-1.el9.noarch                           17/211 
  Installing       : ncurses-base-6.2-12.20210508.el9.noarch             18/211 
  Installing       : ncurses-libs-6.2-12.20210508.el9.ppc64le            19/211 
  Installing       : bash-5.1.8-9.el9.ppc64le                            20/211 
  Running scriptlet: bash-5.1.8-9.el9.ppc64le                            20/211 
  Installing       : libgcc-11.5.0-11.el9.ppc64le                        21/211 
  Running scriptlet: libgcc-11.5.0-11.el9.ppc64le                        21/211 
  Installing       : glibc-common-2.34-231.el9_7.2.ppc64le               22/211 
  Installing       : glibc-gconv-extra-2.34-231.el9_7.2.ppc64le          23/211 
  Running scriptlet: glibc-gconv-extra-2.34-231.el9_7.2.ppc64le          23/211 
  Installing       : glibc-minimal-langpack-2.34-231.el9_7.2.ppc64le     24/211 
  Running scriptlet: glibc-2.34-231.el9_7.2.ppc64le                      25/211 
  Installing       : glibc-2.34-231.el9_7.2.ppc64le                      25/211 
  Running scriptlet: glibc-2.34-231.el9_7.2.ppc64le                      25/211 
  Installing       : zlib-1.2.11-40.el9.ppc64le                          26/211 
  Installing       : xz-libs-5.2.5-8.el9_0.ppc64le                       27/211 
  Installing       : bzip2-libs-1.0.8-10.el9_5.ppc64le                   28/211 
  Installing       : libzstd-1.5.5-1.el9.ppc64le                         29/211 
  Installing       : elfutils-libelf-0.193-1.el9.ppc64le                 30/211 
  Installing       : libxcrypt-4.4.18-3.el9.ppc64le                      31/211 
  Installing       : libuuid-2.37.4-21.el9.ppc64le                       32/211 
  Installing       : libstdc++-11.5.0-11.el9.ppc64le                     33/211 
  Installing       : libattr-2.5.1-3.el9.ppc64le                         34/211 
  Installing       : libacl-2.3.1-4.el9.ppc64le                          35/211 
  Installing       : popt-1.18-8.el9.ppc64le                             36/211 
  Installing       : gmp-1:6.2.0-13.el9.ppc64le                          37/211 
  Installing       : libcap-2.48-10.el9.ppc64le                          38/211 
  Installing       : lz4-libs-1.9.3-5.el9.ppc64le                        39/211 
  Installing       : readline-8.1-4.el9.ppc64le                          40/211 
  Installing       : libcom_err-1.46.5-8.el9.ppc64le                     41/211 
  Installing       : crypto-policies-20250905-1.git377cc42.el9_7.noar    42/211 
  Running scriptlet: crypto-policies-20250905-1.git377cc42.el9_7.noar    42/211 
  Installing       : mpfr-4.1.0-7.el9.ppc64le                            43/211 
  Installing       : dwz-0.16-1.el9.ppc64le                              44/211 
  Installing       : unzip-6.0-59.el9.ppc64le                            45/211 
  Installing       : file-libs-5.39-16.el9.ppc64le                       46/211 
  Installing       : file-5.39-16.el9.ppc64le                            47/211 
  Installing       : sqlite-libs-3.34.1-9.el9_7.ppc64le                  48/211 
  Installing       : libcap-ng-0.8.2-7.el9.ppc64le                       49/211 
  Installing       : audit-libs-3.1.5-7.el9.ppc64le                      50/211 
  Installing       : libsigsegv-2.13-4.el9.ppc64le                       51/211 
  Installing       : gawk-5.1.0-6.el9.ppc64le                            52/211 
  Installing       : libunistring-0.9.10-15.el9.ppc64le                  53/211 
  Installing       : libidn2-2.3.0-7.el9.ppc64le                         54/211 
  Installing       : libffi-3.4.2-8.el9.ppc64le                          55/211 
  Installing       : lua-libs-5.4.4-4.el9.ppc64le                        56/211 
  Installing       : alternatives-1.24-2.el9.ppc64le                     57/211 
  Installing       : libsmartcols-2.37.4-21.el9.ppc64le                  58/211 
  Installing       : libtasn1-4.16.0-9.el9.ppc64le                       59/211 
  Installing       : p11-kit-0.25.3-3.el9_5.ppc64le                      60/211 
  Installing       : libsepol-3.6-3.el9.ppc64le                          61/211 
  Installing       : p11-kit-trust-0.25.3-3.el9_5.ppc64le                62/211 
  Running scriptlet: p11-kit-trust-0.25.3-3.el9_5.ppc64le                62/211 
  Installing       : zip-3.0-35.el9.ppc64le                              63/211 
  Installing       : zstd-1.5.5-1.el9.ppc64le                            64/211 
  Running scriptlet: groff-base-1.22.4-10.el9.ppc64le                    65/211 
  Installing       : groff-base-1.22.4-10.el9.ppc64le                    65/211 
  Running scriptlet: groff-base-1.22.4-10.el9.ppc64le                    65/211 
  Installing       : bzip2-1.0.8-10.el9_5.ppc64le                        66/211 
  Installing       : libxml2-2.9.13-14.el9_7.ppc64le                     67/211 
  Installing       : info-6.7-15.el9.ppc64le                             68/211 
  Installing       : ed-1.14.2-12.el9.ppc64le                            69/211 
  Installing       : cpio-2.13-16.el9.ppc64le                            70/211 
  Installing       : diffutils-3.7-12.el9.ppc64le                        71/211 
  Installing       : json-c-0.14-11.el9.ppc64le                          72/211 
  Installing       : libgpg-error-1.42-5.el9.ppc64le                     73/211 
  Installing       : libgcrypt-1.10.0-11.el9.ppc64le                     74/211 
  Installing       : libverto-0.3.2-3.el9.ppc64le                        75/211 
  Installing       : keyutils-libs-1.6.3-1.el9.ppc64le                   76/211 
  Installing       : libpkgconf-1.7.3-10.el9.ppc64le                     77/211 
  Installing       : pkgconf-1.7.3-10.el9.ppc64le                        78/211 
  Installing       : gdbm-libs-1:1.23-1.el9.ppc64le                      79/211 
  Installing       : libbrotli-1.0.9-7.el9_5.ppc64le                     80/211 
  Installing       : libeconf-0.4.1-4.el9.ppc64le                        81/211 
  Installing       : libnghttp2-1.43.0-6.el9.ppc64le                     82/211 
  Installing       : librtas-2.0.6-1.el9.ppc64le                         83/211 
  Running scriptlet: librtas-2.0.6-1.el9.ppc64le                         83/211 
  Installing       : pcre-8.44-4.el9.ppc64le                             84/211 
  Installing       : grep-3.6-5.el9.ppc64le                              85/211 
  Installing       : xz-5.2.5-8.el9_0.ppc64le                            86/211 
  Installing       : libtool-ltdl-2.4.6-46.el9.ppc64le                   87/211 
  Installing       : libdb-5.3.28-57.el9_6.ppc64le                       88/211 
  Installing       : libgomp-11.5.0-11.el9.ppc64le                       89/211 
  Installing       : ncurses-6.2-12.20210508.el9.ppc64le                 90/211 
  Installing       : elfutils-default-yama-scope-0.193-1.el9.noarch      91/211 
  Running scriptlet: elfutils-default-yama-scope-0.193-1.el9.noarch      91/211 
  Installing       : elfutils-libs-0.193-1.el9.ppc64le                   92/211 
  Installing       : coreutils-common-8.32-39.el9.ppc64le                93/211 
  Installing       : pcre2-syntax-10.40-6.el9.noarch                     94/211 
  Installing       : pcre2-10.40-6.el9.ppc64le                           95/211 
  Installing       : libselinux-3.6-3.el9.ppc64le                        96/211 
  Installing       : sed-4.8-9.el9.ppc64le                               97/211 
  Installing       : findutils-1:4.8.0-7.el9.ppc64le                     98/211 
  Installing       : openssl-fips-provider-so-3.0.7-8.el9.ppc64le        99/211 
  Installing       : openssl-fips-provider-3.0.7-8.el9.ppc64le          100/211 
  Installing       : openssl-libs-1:3.5.1-5.el9_7.ppc64le               101/211 
  Installing       : coreutils-8.32-39.el9.ppc64le                      102/211 
  Running scriptlet: ca-certificates-2025.2.80_v9.0.305-91.el9.noarch   103/211 
  Installing       : ca-certificates-2025.2.80_v9.0.305-91.el9.noarch   103/211 
  Running scriptlet: ca-certificates-2025.2.80_v9.0.305-91.el9.noarch   103/211 
  Installing       : libblkid-2.37.4-21.el9.ppc64le                     104/211 
  Running scriptlet: libblkid-2.37.4-21.el9.ppc64le                     104/211 
  Installing       : krb5-libs-1.21.1-8.el9_6.ppc64le                   105/211 
  Installing       : libmount-2.37.4-21.el9.ppc64le                     106/211 
  Installing       : gzip-1.12-1.el9.ppc64le                            107/211 
  Installing       : cracklib-2.9.6-27.el9.ppc64le                      108/211 
  Installing       : systemd-libs-252-55.el9_7.7.ppc64le                109/211 
  Running scriptlet: systemd-libs-252-55.el9_7.7.ppc64le                109/211 
  Installing       : libarchive-3.5.3-6.el9_6.ppc64le                   110/211 
  Installing       : util-linux-core-2.37.4-21.el9.ppc64le              111/211 
  Running scriptlet: util-linux-core-2.37.4-21.el9.ppc64le              111/211 
  Installing       : cracklib-dicts-2.9.6-27.el9.ppc64le                112/211 
  Installing       : cyrus-sasl-lib-2.1.27-22.el9.ppc64le               113/211 
  Installing       : libssh-0.10.4-17.el9_7.ppc64le                     114/211 
  Installing       : libfdisk-2.37.4-21.el9.ppc64le                     115/211 
  Installing       : perl-Digest-1.19-4.el9.noarch                      116/211 
  Installing       : perl-Digest-MD5-2.58-4.el9.ppc64le                 117/211 
  Installing       : perl-B-1.80-481.1.el9_6.ppc64le                    118/211 
  Installing       : perl-FileHandle-2.03-481.1.el9_6.noarch            119/211 
  Installing       : perl-Data-Dumper-2.174-462.el9.ppc64le             120/211 
  Installing       : perl-libnet-3.13-4.el9.noarch                      121/211 
  Installing       : perl-AutoLoader-5.74-481.1.el9_6.noarch            122/211 
  Installing       : perl-base-2.27-481.1.el9_6.noarch                  123/211 
  Installing       : perl-URI-5.09-3.el9.noarch                         124/211 
  Installing       : perl-Time-Local-2:1.300-7.el9.noarch               125/211 
  Installing       : perl-Mozilla-CA-20200520-6.el9.noarch              126/211 
  Installing       : perl-if-0.60.800-481.1.el9_6.noarch                127/211 
  Installing       : perl-IO-Socket-IP-0.41-5.el9.noarch                128/211 
  Installing       : perl-Pod-Escapes-1:1.07-460.el9.noarch             129/211 
  Installing       : perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch       130/211 
  Installing       : perl-File-Path-2.18-4.el9.noarch                   131/211 
  Installing       : perl-IO-Socket-SSL-2.073-2.el9.noarch              132/211 
  Installing       : perl-Net-SSLeay-1.94-3.el9.ppc64le                 133/211 
  Installing       : perl-Term-ANSIColor-5.01-461.el9.noarch            134/211 
  Installing       : perl-Class-Struct-0.66-481.1.el9_6.noarch          135/211 
  Installing       : perl-POSIX-1.94-481.1.el9_6.ppc64le                136/211 
  Installing       : perl-IPC-Open3-1.21-481.1.el9_6.noarch             137/211 
  Installing       : perl-subs-1.03-481.1.el9_6.noarch                  138/211 
  Installing       : perl-Term-Cap-1.17-460.el9.noarch                  139/211 
  Installing       : perl-File-Temp-1:0.231.100-4.el9.noarch            140/211 
  Installing       : perl-Pod-Simple-1:3.42-4.el9.noarch                141/211 
  Installing       : perl-HTTP-Tiny-0.076-462.el9.noarch                142/211 
  Installing       : perl-Socket-4:2.031-4.el9.ppc64le                  143/211 
  Installing       : perl-SelectSaver-1.02-481.1.el9_6.noarch           144/211 
  Installing       : perl-Symbol-1.08-481.1.el9_6.noarch                145/211 
  Installing       : perl-File-stat-1.09-481.1.el9_6.noarch             146/211 
  Installing       : perl-podlators-1:4.14-460.el9.noarch               147/211 
  Installing       : perl-Pod-Perldoc-3.28.01-461.el9.noarch            148/211 
  Installing       : perl-Text-ParseWords-3.30-460.el9.noarch           149/211 
  Installing       : perl-Fcntl-1.13-481.1.el9_6.ppc64le                150/211 
  Installing       : perl-mro-1.23-481.1.el9_6.ppc64le                  151/211 
  Installing       : perl-IO-1.43-481.1.el9_6.ppc64le                   152/211 
  Installing       : perl-overloading-0.02-481.1.el9_6.noarch           153/211 
  Installing       : perl-Pod-Usage-4:2.01-4.el9.noarch                 154/211 
  Installing       : perl-parent-1:0.238-460.el9.noarch                 155/211 
  Installing       : perl-MIME-Base64-3.16-4.el9.ppc64le                156/211 
  Installing       : perl-constant-1.33-461.el9.noarch                  157/211 
  Installing       : perl-Scalar-List-Utils-4:1.56-462.el9.ppc64le      158/211 
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  Verifying        : go-srpm-macros-3.6.0-12.el9_7.noarch               202/211 
  Verifying        : ansible-srpm-macros-1-16.el9.noarch                203/211 
  Verifying        : epel-rpm-macros-9-17.el9.noarch                    204/211 
  Verifying        : forge-srpm-macros-0.4.0-1.el9.noarch               205/211 
  Verifying        : fpc-srpm-macros-1.3-7.el9.noarch                   206/211 
  Verifying        : ghc-srpm-macros-epel-1.9.1-1.el9.noarch            207/211 
  Verifying        : go-srpm-macros-epel-3.8.0-1.el9.noarch             208/211 
  Verifying        : qt6-srpm-macros-6.6.2-1.el9.noarch                 209/211 
  Verifying        : rpmautospec-rpm-macros-0.8.1-11.el9.noarch         210/211 
  Verifying        : rust-srpm-macros-epel-26.3-1.el9.noarch            211/211 
Installed products updated.

Installed:
  alternatives-1.24-2.el9.ppc64le                                               
  ansible-srpm-macros-1-16.el9.noarch                                           
  audit-libs-3.1.5-7.el9.ppc64le                                                
  basesystem-11-13.el9.noarch                                                   
  bash-5.1.8-9.el9.ppc64le                                                      
  binutils-2.35.2-67.el9_7.1.ppc64le                                            
  binutils-gold-2.35.2-67.el9_7.1.ppc64le                                       
  bzip2-1.0.8-10.el9_5.ppc64le                                                  
  bzip2-libs-1.0.8-10.el9_5.ppc64le                                             
  ca-certificates-2025.2.80_v9.0.305-91.el9.noarch                              
  coreutils-8.32-39.el9.ppc64le                                                 
  coreutils-common-8.32-39.el9.ppc64le                                          
  cpio-2.13-16.el9.ppc64le                                                      
  cracklib-2.9.6-27.el9.ppc64le                                                 
  cracklib-dicts-2.9.6-27.el9.ppc64le                                           
  crypto-policies-20250905-1.git377cc42.el9_7.noarch                            
  curl-7.76.1-34.el9.ppc64le                                                    
  cyrus-sasl-lib-2.1.27-22.el9.ppc64le                                          
  debugedit-5.0-11.el9.ppc64le                                                  
  diffutils-3.7-12.el9.ppc64le                                                  
  dwz-0.16-1.el9.ppc64le                                                        
  ed-1.14.2-12.el9.ppc64le                                                      
  efi-srpm-macros-6-4.el9.noarch                                                
  elfutils-0.193-1.el9.ppc64le                                                  
  elfutils-debuginfod-client-0.193-1.el9.ppc64le                                
  elfutils-default-yama-scope-0.193-1.el9.noarch                                
  elfutils-libelf-0.193-1.el9.ppc64le                                           
  elfutils-libs-0.193-1.el9.ppc64le                                             
  epel-rpm-macros-9-17.el9.noarch                                               
  file-5.39-16.el9.ppc64le                                                      
  file-libs-5.39-16.el9.ppc64le                                                 
  filesystem-3.16-5.el9.ppc64le                                                 
  findutils-1:4.8.0-7.el9.ppc64le                                               
  fonts-srpm-macros-1:2.0.5-7.el9.1.noarch                                      
  forge-srpm-macros-0.4.0-1.el9.noarch                                          
  fpc-srpm-macros-1.3-7.el9.noarch                                              
  gawk-5.1.0-6.el9.ppc64le                                                      
  gdb-minimal-16.3-2.el9.ppc64le                                                
  gdbm-libs-1:1.23-1.el9.ppc64le                                                
  ghc-srpm-macros-1.5.0-6.el9.noarch                                            
  ghc-srpm-macros-epel-1.9.1-1.el9.noarch                                       
  glibc-2.34-231.el9_7.2.ppc64le                                                
  glibc-common-2.34-231.el9_7.2.ppc64le                                         
  glibc-gconv-extra-2.34-231.el9_7.2.ppc64le                                    
  glibc-minimal-langpack-2.34-231.el9_7.2.ppc64le                               
  gmp-1:6.2.0-13.el9.ppc64le                                                    
  go-srpm-macros-3.6.0-12.el9_7.noarch                                          
  go-srpm-macros-epel-3.8.0-1.el9.noarch                                        
  grep-3.6-5.el9.ppc64le                                                        
  groff-base-1.22.4-10.el9.ppc64le                                              
  gzip-1.12-1.el9.ppc64le                                                       
  info-6.7-15.el9.ppc64le                                                       
  json-c-0.14-11.el9.ppc64le                                                    
  kernel-srpm-macros-1.0-14.el9.noarch                                          
  keyutils-libs-1.6.3-1.el9.ppc64le                                             
  krb5-libs-1.21.1-8.el9_6.ppc64le                                              
  libacl-2.3.1-4.el9.ppc64le                                                    
  libarchive-3.5.3-6.el9_6.ppc64le                                              
  libattr-2.5.1-3.el9.ppc64le                                                   
  libblkid-2.37.4-21.el9.ppc64le                                                
  libbrotli-1.0.9-7.el9_5.ppc64le                                               
  libcap-2.48-10.el9.ppc64le                                                    
  libcap-ng-0.8.2-7.el9.ppc64le                                                 
  libcom_err-1.46.5-8.el9.ppc64le                                               
  libcurl-7.76.1-34.el9.ppc64le                                                 
  libdb-5.3.28-57.el9_6.ppc64le                                                 
  libeconf-0.4.1-4.el9.ppc64le                                                  
  libevent-2.1.12-8.el9_4.ppc64le                                               
  libfdisk-2.37.4-21.el9.ppc64le                                                
  libffi-3.4.2-8.el9.ppc64le                                                    
  libgcc-11.5.0-11.el9.ppc64le                                                  
  libgcrypt-1.10.0-11.el9.ppc64le                                               
  libgomp-11.5.0-11.el9.ppc64le                                                 
  libgpg-error-1.42-5.el9.ppc64le                                               
  libidn2-2.3.0-7.el9.ppc64le                                                   
  libmount-2.37.4-21.el9.ppc64le                                                
  libnghttp2-1.43.0-6.el9.ppc64le                                               
  libpkgconf-1.7.3-10.el9.ppc64le                                               
  libpsl-0.21.1-5.el9.ppc64le                                                   
  libpwquality-1.4.4-8.el9.ppc64le                                              
  librtas-2.0.6-1.el9.ppc64le                                                   
  libselinux-3.6-3.el9.ppc64le                                                  
  libsemanage-3.6-5.el9_6.ppc64le                                               
  libsepol-3.6-3.el9.ppc64le                                                    
  libsigsegv-2.13-4.el9.ppc64le                                                 
  libsmartcols-2.37.4-21.el9.ppc64le                                            
  libssh-0.10.4-17.el9_7.ppc64le                                                
  libssh-config-0.10.4-17.el9_7.noarch                                          
  libstdc++-11.5.0-11.el9.ppc64le                                               
  libtasn1-4.16.0-9.el9.ppc64le                                                 
  libtool-ltdl-2.4.6-46.el9.ppc64le                                             
  libunistring-0.9.10-15.el9.ppc64le                                            
  libutempter-1.2.1-6.el9.ppc64le                                               
  libuuid-2.37.4-21.el9.ppc64le                                                 
  libverto-0.3.2-3.el9.ppc64le                                                  
  libxcrypt-4.4.18-3.el9.ppc64le                                                
  libxml2-2.9.13-14.el9_7.ppc64le                                               
  libzstd-1.5.5-1.el9.ppc64le                                                   
  lua-libs-5.4.4-4.el9.ppc64le                                                  
  lua-srpm-macros-1-6.el9.noarch                                                
  lz4-libs-1.9.3-5.el9.ppc64le                                                  
  mpfr-4.1.0-7.el9.ppc64le                                                      
  ncurses-6.2-12.20210508.el9.ppc64le                                           
  ncurses-base-6.2-12.20210508.el9.noarch                                       
  ncurses-libs-6.2-12.20210508.el9.ppc64le                                      
  ocaml-srpm-macros-6-6.el9.noarch                                              
  openblas-srpm-macros-2-11.el9.noarch                                          
  openldap-2.6.8-4.el9.ppc64le                                                  
  openssl-1:3.5.1-5.el9_7.ppc64le                                               
  openssl-fips-provider-3.0.7-8.el9.ppc64le                                     
  openssl-fips-provider-so-3.0.7-8.el9.ppc64le                                  
  openssl-libs-1:3.5.1-5.el9_7.ppc64le                                          
  p11-kit-0.25.3-3.el9_5.ppc64le                                                
  p11-kit-trust-0.25.3-3.el9_5.ppc64le                                          
  pam-1.5.1-26.el9_6.ppc64le                                                    
  patch-2.7.6-16.el9.ppc64le                                                    
  pcre-8.44-4.el9.ppc64le                                                       
  pcre2-10.40-6.el9.ppc64le                                                     
  pcre2-syntax-10.40-6.el9.noarch                                               
  perl-AutoLoader-5.74-481.1.el9_6.noarch                                       
  perl-B-1.80-481.1.el9_6.ppc64le                                               
  perl-Carp-1.50-460.el9.noarch                                                 
  perl-Class-Struct-0.66-481.1.el9_6.noarch                                     
  perl-Data-Dumper-2.174-462.el9.ppc64le                                        
  perl-Digest-1.19-4.el9.noarch                                                 
  perl-Digest-MD5-2.58-4.el9.ppc64le                                            
  perl-Encode-4:3.08-462.el9.ppc64le                                            
  perl-Errno-1.30-481.1.el9_6.ppc64le                                           
  perl-Exporter-5.74-461.el9.noarch                                             
  perl-Fcntl-1.13-481.1.el9_6.ppc64le                                           
  perl-File-Basename-2.85-481.1.el9_6.noarch                                    
  perl-File-Path-2.18-4.el9.noarch                                              
  perl-File-Temp-1:0.231.100-4.el9.noarch                                       
  perl-File-stat-1.09-481.1.el9_6.noarch                                        
  perl-FileHandle-2.03-481.1.el9_6.noarch                                       
  perl-Getopt-Long-1:2.52-4.el9.noarch                                          
  perl-Getopt-Std-1.12-481.1.el9_6.noarch                                       
  perl-HTTP-Tiny-0.076-462.el9.noarch                                           
  perl-IO-1.43-481.1.el9_6.ppc64le                                              
  perl-IO-Socket-IP-0.41-5.el9.noarch                                           
  perl-IO-Socket-SSL-2.073-2.el9.noarch                                         
  perl-IPC-Open3-1.21-481.1.el9_6.noarch                                        
  perl-MIME-Base64-3.16-4.el9.ppc64le                                           
  perl-Mozilla-CA-20200520-6.el9.noarch                                         
  perl-Net-SSLeay-1.94-3.el9.ppc64le                                            
  perl-POSIX-1.94-481.1.el9_6.ppc64le                                           
  perl-PathTools-3.78-461.el9.ppc64le                                           
  perl-Pod-Escapes-1:1.07-460.el9.noarch                                        
  perl-Pod-Perldoc-3.28.01-461.el9.noarch                                       
  perl-Pod-Simple-1:3.42-4.el9.noarch                                           
  perl-Pod-Usage-4:2.01-4.el9.noarch                                            
  perl-Scalar-List-Utils-4:1.56-462.el9.ppc64le                                 
  perl-SelectSaver-1.02-481.1.el9_6.noarch                                      
  perl-Socket-4:2.031-4.el9.ppc64le                                             
  perl-Storable-1:3.21-460.el9.ppc64le                                          
  perl-Symbol-1.08-481.1.el9_6.noarch                                           
  perl-Term-ANSIColor-5.01-461.el9.noarch                                       
  perl-Term-Cap-1.17-460.el9.noarch                                             
  perl-Text-ParseWords-3.30-460.el9.noarch                                      
  perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch                                  
  perl-Time-Local-2:1.300-7.el9.noarch                                          
  perl-URI-5.09-3.el9.noarch                                                    
  perl-base-2.27-481.1.el9_6.noarch                                             
  perl-constant-1.33-461.el9.noarch                                             
  perl-if-0.60.800-481.1.el9_6.noarch                                           
  perl-interpreter-4:5.32.1-481.1.el9_6.ppc64le                                 
  perl-libnet-3.13-4.el9.noarch                                                 
  perl-libs-4:5.32.1-481.1.el9_6.ppc64le                                        
  perl-mro-1.23-481.1.el9_6.ppc64le                                             
  perl-overload-1.31-481.1.el9_6.noarch                                         
  perl-overloading-0.02-481.1.el9_6.noarch                                      
  perl-parent-1:0.238-460.el9.noarch                                            
  perl-podlators-1:4.14-460.el9.noarch                                          
  perl-srpm-macros-1-41.el9.noarch                                              
  perl-subs-1.03-481.1.el9_6.noarch                                             
  perl-vars-1.05-481.1.el9_6.noarch                                             
  pkgconf-1.7.3-10.el9.ppc64le                                                  
  pkgconf-m4-1.7.3-10.el9.noarch                                                
  pkgconf-pkg-config-1.7.3-10.el9.ppc64le                                       
  popt-1.18-8.el9.ppc64le                                                       
  publicsuffix-list-dafsa-20210518-3.el9.noarch                                 
  pyproject-srpm-macros-1.16.2-1.el9.noarch                                     
  python-srpm-macros-3.9-54.el9.noarch                                          
  qt5-srpm-macros-5.15.9-1.el9.noarch                                           
  qt6-srpm-macros-6.6.2-1.el9.noarch                                            
  readline-8.1-4.el9.ppc64le                                                    
  redhat-release-9.7-0.7.el9.ppc64le                                            
  redhat-rpm-config-210-1.el9.noarch                                            
  rpm-4.16.1.3-39.el9.ppc64le                                                   
  rpm-build-4.16.1.3-39.el9.ppc64le                                             
  rpm-build-libs-4.16.1.3-39.el9.ppc64le                                        
  rpm-libs-4.16.1.3-39.el9.ppc64le                                              
  rpmautospec-rpm-macros-0.8.1-11.el9.noarch                                    
  rust-srpm-macros-17-4.el9.noarch                                              
  rust-srpm-macros-epel-26.3-1.el9.noarch                                       
  sed-4.8-9.el9.ppc64le                                                         
  setup-2.13.7-10.el9.noarch                                                    
  shadow-utils-2:4.9-15.el9.ppc64le                                             
  sqlite-libs-3.34.1-9.el9_7.ppc64le                                            
  systemd-libs-252-55.el9_7.7.ppc64le                                           
  tar-2:1.34-9.el9_7.ppc64le                                                    
  tzdata-2025c-1.el9.noarch                                                     
  unzip-6.0-59.el9.ppc64le                                                      
  util-linux-2.37.4-21.el9.ppc64le                                              
  util-linux-core-2.37.4-21.el9.ppc64le                                         
  which-2.21-30.el9_6.ppc64le                                                   
  xz-5.2.5-8.el9_0.ppc64le                                                      
  xz-libs-5.2.5-8.el9_0.ppc64le                                                 
  zip-3.0-35.el9.ppc64le                                                        
  zlib-1.2.11-40.el9.ppc64le                                                    
  zstd-1.5.5-1.el9.ppc64le                                                      

Complete!
Finish: installing minimal buildroot with dnf
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: alternatives-1.24-2.el9.ppc64le
ansible-srpm-macros-1-16.el9.noarch
audit-libs-3.1.5-7.el9.ppc64le
basesystem-11-13.el9.noarch
bash-5.1.8-9.el9.ppc64le
binutils-2.35.2-67.el9_7.1.ppc64le
binutils-gold-2.35.2-67.el9_7.1.ppc64le
bzip2-1.0.8-10.el9_5.ppc64le
bzip2-libs-1.0.8-10.el9_5.ppc64le
ca-certificates-2025.2.80_v9.0.305-91.el9.noarch
coreutils-8.32-39.el9.ppc64le
coreutils-common-8.32-39.el9.ppc64le
cpio-2.13-16.el9.ppc64le
cracklib-2.9.6-27.el9.ppc64le
cracklib-dicts-2.9.6-27.el9.ppc64le
crypto-policies-20250905-1.git377cc42.el9_7.noarch
curl-7.76.1-34.el9.ppc64le
cyrus-sasl-lib-2.1.27-22.el9.ppc64le
debugedit-5.0-11.el9.ppc64le
diffutils-3.7-12.el9.ppc64le
dwz-0.16-1.el9.ppc64le
ed-1.14.2-12.el9.ppc64le
efi-srpm-macros-6-4.el9.noarch
elfutils-0.193-1.el9.ppc64le
elfutils-debuginfod-client-0.193-1.el9.ppc64le
elfutils-default-yama-scope-0.193-1.el9.noarch
elfutils-libelf-0.193-1.el9.ppc64le
elfutils-libs-0.193-1.el9.ppc64le
epel-rpm-macros-9-17.el9.noarch
file-5.39-16.el9.ppc64le
file-libs-5.39-16.el9.ppc64le
filesystem-3.16-5.el9.ppc64le
findutils-4.8.0-7.el9.ppc64le
fonts-srpm-macros-2.0.5-7.el9.1.noarch
forge-srpm-macros-0.4.0-1.el9.noarch
fpc-srpm-macros-1.3-7.el9.noarch
gawk-5.1.0-6.el9.ppc64le
gdb-minimal-16.3-2.el9.ppc64le
gdbm-libs-1.23-1.el9.ppc64le
ghc-srpm-macros-1.5.0-6.el9.noarch
ghc-srpm-macros-epel-1.9.1-1.el9.noarch
glibc-2.34-231.el9_7.2.ppc64le
glibc-common-2.34-231.el9_7.2.ppc64le
glibc-gconv-extra-2.34-231.el9_7.2.ppc64le
glibc-minimal-langpack-2.34-231.el9_7.2.ppc64le
gmp-6.2.0-13.el9.ppc64le
go-srpm-macros-3.6.0-12.el9_7.noarch
go-srpm-macros-epel-3.8.0-1.el9.noarch
gpg-pubkey-3228467c-613798eb
gpg-pubkey-5a6340b3-6229229e
gpg-pubkey-fd431d51-4ae0493b
grep-3.6-5.el9.ppc64le
groff-base-1.22.4-10.el9.ppc64le
gzip-1.12-1.el9.ppc64le
info-6.7-15.el9.ppc64le
json-c-0.14-11.el9.ppc64le
kernel-srpm-macros-1.0-14.el9.noarch
keyutils-libs-1.6.3-1.el9.ppc64le
krb5-libs-1.21.1-8.el9_6.ppc64le
libacl-2.3.1-4.el9.ppc64le
libarchive-3.5.3-6.el9_6.ppc64le
libattr-2.5.1-3.el9.ppc64le
libblkid-2.37.4-21.el9.ppc64le
libbrotli-1.0.9-7.el9_5.ppc64le
libcap-2.48-10.el9.ppc64le
libcap-ng-0.8.2-7.el9.ppc64le
libcom_err-1.46.5-8.el9.ppc64le
libcurl-7.76.1-34.el9.ppc64le
libdb-5.3.28-57.el9_6.ppc64le
libeconf-0.4.1-4.el9.ppc64le
libevent-2.1.12-8.el9_4.ppc64le
libfdisk-2.37.4-21.el9.ppc64le
libffi-3.4.2-8.el9.ppc64le
libgcc-11.5.0-11.el9.ppc64le
libgcrypt-1.10.0-11.el9.ppc64le
libgomp-11.5.0-11.el9.ppc64le
libgpg-error-1.42-5.el9.ppc64le
libidn2-2.3.0-7.el9.ppc64le
libmount-2.37.4-21.el9.ppc64le
libnghttp2-1.43.0-6.el9.ppc64le
libpkgconf-1.7.3-10.el9.ppc64le
libpsl-0.21.1-5.el9.ppc64le
libpwquality-1.4.4-8.el9.ppc64le
librtas-2.0.6-1.el9.ppc64le
libselinux-3.6-3.el9.ppc64le
libsemanage-3.6-5.el9_6.ppc64le
libsepol-3.6-3.el9.ppc64le
libsigsegv-2.13-4.el9.ppc64le
libsmartcols-2.37.4-21.el9.ppc64le
libssh-0.10.4-17.el9_7.ppc64le
libssh-config-0.10.4-17.el9_7.noarch
libstdc++-11.5.0-11.el9.ppc64le
libtasn1-4.16.0-9.el9.ppc64le
libtool-ltdl-2.4.6-46.el9.ppc64le
libunistring-0.9.10-15.el9.ppc64le
libutempter-1.2.1-6.el9.ppc64le
libuuid-2.37.4-21.el9.ppc64le
libverto-0.3.2-3.el9.ppc64le
libxcrypt-4.4.18-3.el9.ppc64le
libxml2-2.9.13-14.el9_7.ppc64le
libzstd-1.5.5-1.el9.ppc64le
lua-libs-5.4.4-4.el9.ppc64le
lua-srpm-macros-1-6.el9.noarch
lz4-libs-1.9.3-5.el9.ppc64le
mpfr-4.1.0-7.el9.ppc64le
ncurses-6.2-12.20210508.el9.ppc64le
ncurses-base-6.2-12.20210508.el9.noarch
ncurses-libs-6.2-12.20210508.el9.ppc64le
ocaml-srpm-macros-6-6.el9.noarch
openblas-srpm-macros-2-11.el9.noarch
openldap-2.6.8-4.el9.ppc64le
openssl-3.5.1-5.el9_7.ppc64le
openssl-fips-provider-3.0.7-8.el9.ppc64le
openssl-fips-provider-so-3.0.7-8.el9.ppc64le
openssl-libs-3.5.1-5.el9_7.ppc64le
p11-kit-0.25.3-3.el9_5.ppc64le
p11-kit-trust-0.25.3-3.el9_5.ppc64le
pam-1.5.1-26.el9_6.ppc64le
patch-2.7.6-16.el9.ppc64le
pcre-8.44-4.el9.ppc64le
pcre2-10.40-6.el9.ppc64le
pcre2-syntax-10.40-6.el9.noarch
perl-AutoLoader-5.74-481.1.el9_6.noarch
perl-B-1.80-481.1.el9_6.ppc64le
perl-Carp-1.50-460.el9.noarch
perl-Class-Struct-0.66-481.1.el9_6.noarch
perl-Data-Dumper-2.174-462.el9.ppc64le
perl-Digest-1.19-4.el9.noarch
perl-Digest-MD5-2.58-4.el9.ppc64le
perl-Encode-3.08-462.el9.ppc64le
perl-Errno-1.30-481.1.el9_6.ppc64le
perl-Exporter-5.74-461.el9.noarch
perl-Fcntl-1.13-481.1.el9_6.ppc64le
perl-File-Basename-2.85-481.1.el9_6.noarch
perl-File-Path-2.18-4.el9.noarch
perl-File-Temp-0.231.100-4.el9.noarch
perl-File-stat-1.09-481.1.el9_6.noarch
perl-FileHandle-2.03-481.1.el9_6.noarch
perl-Getopt-Long-2.52-4.el9.noarch
perl-Getopt-Std-1.12-481.1.el9_6.noarch
perl-HTTP-Tiny-0.076-462.el9.noarch
perl-IO-1.43-481.1.el9_6.ppc64le
perl-IO-Socket-IP-0.41-5.el9.noarch
perl-IO-Socket-SSL-2.073-2.el9.noarch
perl-IPC-Open3-1.21-481.1.el9_6.noarch
perl-MIME-Base64-3.16-4.el9.ppc64le
perl-Mozilla-CA-20200520-6.el9.noarch
perl-Net-SSLeay-1.94-3.el9.ppc64le
perl-POSIX-1.94-481.1.el9_6.ppc64le
perl-PathTools-3.78-461.el9.ppc64le
perl-Pod-Escapes-1.07-460.el9.noarch
perl-Pod-Perldoc-3.28.01-461.el9.noarch
perl-Pod-Simple-3.42-4.el9.noarch
perl-Pod-Usage-2.01-4.el9.noarch
perl-Scalar-List-Utils-1.56-462.el9.ppc64le
perl-SelectSaver-1.02-481.1.el9_6.noarch
perl-Socket-2.031-4.el9.ppc64le
perl-Storable-3.21-460.el9.ppc64le
perl-Symbol-1.08-481.1.el9_6.noarch
perl-Term-ANSIColor-5.01-461.el9.noarch
perl-Term-Cap-1.17-460.el9.noarch
perl-Text-ParseWords-3.30-460.el9.noarch
perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch
perl-Time-Local-1.300-7.el9.noarch
perl-URI-5.09-3.el9.noarch
perl-base-2.27-481.1.el9_6.noarch
perl-constant-1.33-461.el9.noarch
perl-if-0.60.800-481.1.el9_6.noarch
perl-interpreter-5.32.1-481.1.el9_6.ppc64le
perl-libnet-3.13-4.el9.noarch
perl-libs-5.32.1-481.1.el9_6.ppc64le
perl-mro-1.23-481.1.el9_6.ppc64le
perl-overload-1.31-481.1.el9_6.noarch
perl-overloading-0.02-481.1.el9_6.noarch
perl-parent-0.238-460.el9.noarch
perl-podlators-4.14-460.el9.noarch
perl-srpm-macros-1-41.el9.noarch
perl-subs-1.03-481.1.el9_6.noarch
perl-vars-1.05-481.1.el9_6.noarch
pkgconf-1.7.3-10.el9.ppc64le
pkgconf-m4-1.7.3-10.el9.noarch
pkgconf-pkg-config-1.7.3-10.el9.ppc64le
popt-1.18-8.el9.ppc64le
publicsuffix-list-dafsa-20210518-3.el9.noarch
pyproject-srpm-macros-1.16.2-1.el9.noarch
python-srpm-macros-3.9-54.el9.noarch
qt5-srpm-macros-5.15.9-1.el9.noarch
qt6-srpm-macros-6.6.2-1.el9.noarch
readline-8.1-4.el9.ppc64le
redhat-release-9.7-0.7.el9.ppc64le
redhat-rpm-config-210-1.el9.noarch
rpm-4.16.1.3-39.el9.ppc64le
rpm-build-4.16.1.3-39.el9.ppc64le
rpm-build-libs-4.16.1.3-39.el9.ppc64le
rpm-libs-4.16.1.3-39.el9.ppc64le
rpmautospec-rpm-macros-0.8.1-11.el9.noarch
rust-srpm-macros-17-4.el9.noarch
rust-srpm-macros-epel-26.3-1.el9.noarch
sed-4.8-9.el9.ppc64le
setup-2.13.7-10.el9.noarch
shadow-utils-4.9-15.el9.ppc64le
sqlite-libs-3.34.1-9.el9_7.ppc64le
systemd-libs-252-55.el9_7.7.ppc64le
tar-1.34-9.el9_7.ppc64le
tzdata-2025c-1.el9.noarch
unzip-6.0-59.el9.ppc64le
util-linux-2.37.4-21.el9.ppc64le
util-linux-core-2.37.4-21.el9.ppc64le
which-2.21-30.el9_6.ppc64le
xz-5.2.5-8.el9_0.ppc64le
xz-libs-5.2.5-8.el9_0.ppc64le
zip-3.0-35.el9.ppc64le
zlib-1.2.11-40.el9.ppc64le
zstd-1.5.5-1.el9.ppc64le
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.el9.src.rpm
Finish: rpmbuild -bs
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/rhel+epel-9-ppc64le-1769502178.609159/root/var/log/dnf.rpm.log
/var/lib/mock/rhel+epel-9-ppc64le-1769502178.609159/root/var/log/dnf.librepo.log
/var/lib/mock/rhel+epel-9-ppc64le-1769502178.609159/root/var/log/dnf.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
Finish: buildsrpm
INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-lnaty1xi/bcftools/bcftools.spec) Config(child) 3 minutes 33 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/bcftools-1.23-1.el9.src.rpm)  Config(rhel+epel-9-ppc64le)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-ppc64le-bootstrap-1769502178.609159/root.
INFO: reusing tmpfs at /var/lib/mock/rhel+epel-9-ppc64le-bootstrap-1769502178.609159/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/rhel+epel-9-ppc64le-1769502178.609159/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-4.16.1.3-39.el9.ppc64le
  python3-dnf-4.14.0-31.el9.noarch
  python3-dnf-plugins-core-4.3.0-24.el9_7.noarch
  yum-4.14.0-31.el9.noarch
Finish: chroot init
Start: build phase for bcftools-1.23-1.el9.src.rpm
Start: build setup for bcftools-1.23-1.el9.src.rpm
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.el9.src.rpm
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

This system is not registered with an entitlement server. You can use subscription-manager to register.

Copr repository                                 3.7 kB/s | 1.5 kB     00:00    
Copr repository                                  17 kB/s | 7.3 kB     00:00    
Red Hat Enterprise Linux - BaseOS                12 kB/s | 4.1 kB     00:00    
Red Hat Enterprise Linux - AppStream             36 kB/s | 4.5 kB     00:00    
Red Hat Enterprise Linux - CodeReady Linux Buil  42 kB/s | 4.5 kB     00:00    
Extra Packages for Enterprise Linux 9 - ppc64le 716 kB/s |  26 kB     00:00    
Package perl-File-Temp-1:0.231.100-4.el9.noarch is already installed.
Package perl-Getopt-Long-1:2.52-4.el9.noarch is already installed.
Package perl-interpreter-4:5.32.1-481.1.el9_6.ppc64le is already installed.
Dependencies resolved.
================================================================================
 Package                   Arch     Version                    Repository  Size
================================================================================
Installing:
 autoconf                  noarch   2.69-41.el9                appstream  681 k
 automake                  noarch   1.16.2-8.el9               appstream  693 k
 gcc                       ppc64le  11.5.0-11.el9              appstream   28 M
 gsl-devel                 ppc64le  2.6-7.el9                  appstream  652 k
 htslib-devel              ppc64le  1.23-1.el9                 copr_base  107 k
 htslib-tools              ppc64le  1.23-1.el9                 copr_base  800 k
 make                      ppc64le  1:4.3-8.el9                baseos     554 k
 perl-ExtUtils-Embed       noarch   1.35-481.1.el9_6           appstream   17 k
 perl-FindBin              noarch   1.51-481.1.el9_6           appstream   14 k
 zlib-devel                ppc64le  1.2.11-40.el9              appstream   47 k
Installing dependencies:
 annobin                   ppc64le  12.98-1.el9                appstream  1.1 M
 cpp                       ppc64le  11.5.0-11.el9              appstream  9.2 M
 emacs-filesystem          noarch   1:27.2-18.el9              appstream  9.3 k
 expat                     ppc64le  2.5.0-5.el9_7.1            baseos     122 k
 gcc-plugin-annobin        ppc64le  11.5.0-11.el9              appstream   39 k
 glibc-devel               ppc64le  2.34-231.el9_7.2           appstream  569 k
 gsl                       ppc64le  2.6-7.el9                  appstream  1.1 M
 htslib                    ppc64le  1.23-1.el9                 copr_base  622 k
 kernel-headers            ppc64le  5.14.0-611.26.1.el9_7      appstream  2.9 M
 libasan                   ppc64le  11.5.0-11.el9              appstream  430 k
 libatomic                 ppc64le  11.5.0-11.el9              baseos      24 k
 libedit                   ppc64le  3.1-38.20210216cvs.el9     baseos     119 k
 libmpc                    ppc64le  1.2.1-4.el9                appstream   70 k
 libubsan                  ppc64le  11.5.0-11.el9              appstream  197 k
 libxcrypt-devel           ppc64le  4.4.18-3.el9               appstream   32 k
 llvm-filesystem           ppc64le  20.1.8-3.el9               appstream  9.1 k
 llvm-libs                 ppc64le  20.1.8-3.el9               appstream   30 M
 m4                        ppc64le  1.4.19-1.el9               appstream  321 k
 perl-AutoSplit            noarch   5.74-481.1.el9_6           appstream   21 k
 perl-Benchmark            noarch   1.23-481.1.el9_6           appstream   26 k
 perl-Devel-PPPort         ppc64le  3.62-4.el9                 appstream  217 k
 perl-DynaLoader           ppc64le  1.47-481.1.el9_6           appstream   25 k
 perl-ExtUtils-Command     noarch   2:7.60-3.el9               appstream   16 k
 perl-ExtUtils-Constant    noarch   0.25-481.1.el9_6           appstream   46 k
 perl-ExtUtils-Install     noarch   2.20-4.el9                 appstream   47 k
 perl-ExtUtils-MakeMaker   noarch   2:7.60-3.el9               appstream  304 k
 perl-ExtUtils-Manifest    noarch   1:1.73-4.el9               appstream   37 k
 perl-ExtUtils-ParseXS     noarch   1:3.40-460.el9             appstream  190 k
 perl-File-Compare         noarch   1.100.600-481.1.el9_6      appstream   13 k
 perl-File-Copy            noarch   2.34-481.1.el9_6           appstream   20 k
 perl-File-Find            noarch   1.37-481.1.el9_6           appstream   25 k
 perl-Test-Harness         noarch   1:3.42-461.el9             appstream  299 k
 perl-Thread-Queue         noarch   3.14-460.el9               appstream   24 k
 perl-devel                ppc64le  4:5.32.1-481.1.el9_6       appstream  676 k
 perl-lib                  ppc64le  0.65-481.1.el9_6           appstream   14 k
 perl-locale               noarch   1.09-481.1.el9_6           appstream   13 k
 perl-threads              ppc64le  1:2.25-460.el9             appstream   61 k
 perl-threads-shared       ppc64le  1.61-460.el9               appstream   48 k
 perl-version              ppc64le  7:0.99.28-4.el9            appstream   68 k
 python3                   ppc64le  3.9.25-2.el9_7             baseos      26 k
 python3-libs              ppc64le  3.9.25-2.el9_7             baseos     8.0 M
 python3-pip-wheel         noarch   21.3.1-1.el9               baseos     1.1 M
 python3-pyparsing         noarch   2.4.7-9.el9                baseos     154 k
 python3-setuptools-wheel  noarch   53.0.0-15.el9              baseos     468 k
 systemtap-sdt-devel       ppc64le  5.3-3.el9                  appstream   69 k
 systemtap-sdt-dtrace      ppc64le  5.3-3.el9                  appstream   70 k

Transaction Summary
================================================================================
Install  56 Packages

Total download size: 90 M
Installed size: 316 M
Downloading Packages:
(1/56): htslib-devel-1.23-1.el9.ppc64le.rpm     410 kB/s | 107 kB     00:00    
(2/56): htslib-1.23-1.el9.ppc64le.rpm           1.8 MB/s | 622 kB     00:00    
(3/56): htslib-tools-1.23-1.el9.ppc64le.rpm     2.0 MB/s | 800 kB     00:00    
(4/56): python3-pyparsing-2.4.7-9.el9.noarch.rp 983 kB/s | 154 kB     00:00    
(5/56): libedit-3.1-38.20210216cvs.el9.ppc64le. 1.0 MB/s | 119 kB     00:00    
(6/56): libatomic-11.5.0-11.el9.ppc64le.rpm     453 kB/s |  24 kB     00:00    
(7/56): make-4.3-8.el9.ppc64le.rpm              4.0 MB/s | 554 kB     00:00    
(8/56): python3-pip-wheel-21.3.1-1.el9.noarch.r 9.3 MB/s | 1.1 MB     00:00    
(9/56): python3-setuptools-wheel-53.0.0-15.el9. 7.4 MB/s | 468 kB     00:00    
(10/56): expat-2.5.0-5.el9_7.1.ppc64le.rpm      2.9 MB/s | 122 kB     00:00    
(11/56): python3-3.9.25-2.el9_7.ppc64le.rpm     613 kB/s |  26 kB     00:00    
(12/56): m4-1.4.19-1.el9.ppc64le.rpm            9.4 MB/s | 321 kB     00:00    
(13/56): perl-Devel-PPPort-3.62-4.el9.ppc64le.r 4.3 MB/s | 217 kB     00:00    
(14/56): perl-threads-shared-1.61-460.el9.ppc64 767 kB/s |  48 kB     00:00    
(15/56): gsl-2.6-7.el9.ppc64le.rpm               21 MB/s | 1.1 MB     00:00    
(16/56): python3-libs-3.9.25-2.el9_7.ppc64le.rp  46 MB/s | 8.0 MB     00:00    
(17/56): libmpc-1.2.1-4.el9.ppc64le.rpm         989 kB/s |  70 kB     00:00    
(18/56): perl-ExtUtils-MakeMaker-7.60-3.el9.noa 3.7 MB/s | 304 kB     00:00    
(19/56): perl-ExtUtils-Install-2.20-4.el9.noarc 812 kB/s |  47 kB     00:00    
(20/56): perl-ExtUtils-Manifest-1.73-4.el9.noar 1.1 MB/s |  37 kB     00:00    
(21/56): libxcrypt-devel-4.4.18-3.el9.ppc64le.r 415 kB/s |  32 kB     00:00    
(22/56): perl-ExtUtils-ParseXS-3.40-460.el9.noa 5.6 MB/s | 190 kB     00:00    
(23/56): perl-version-0.99.28-4.el9.ppc64le.rpm 1.9 MB/s |  68 kB     00:00    
(24/56): perl-ExtUtils-Command-7.60-3.el9.noarc 333 kB/s |  16 kB     00:00    
(25/56): perl-Test-Harness-3.42-461.el9.noarch. 5.5 MB/s | 299 kB     00:00    
(26/56): perl-Thread-Queue-3.14-460.el9.noarch. 301 kB/s |  24 kB     00:00    
(27/56): gsl-devel-2.6-7.el9.ppc64le.rpm         13 MB/s | 652 kB     00:00    
(28/56): automake-1.16.2-8.el9.noarch.rpm        13 MB/s | 693 kB     00:00    
(29/56): perl-threads-2.25-460.el9.ppc64le.rpm  477 kB/s |  61 kB     00:00    
(30/56): perl-AutoSplit-5.74-481.1.el9_6.noarch 599 kB/s |  21 kB     00:00    
(31/56): perl-DynaLoader-1.47-481.1.el9_6.ppc64 638 kB/s |  25 kB     00:00    
(32/56): zlib-devel-1.2.11-40.el9.ppc64le.rpm   405 kB/s |  47 kB     00:00    
(33/56): perl-Benchmark-1.23-481.1.el9_6.noarch 426 kB/s |  26 kB     00:00    
(34/56): perl-ExtUtils-Constant-0.25-481.1.el9_ 1.6 MB/s |  46 kB     00:00    
(35/56): perl-ExtUtils-Embed-1.35-481.1.el9_6.n 397 kB/s |  17 kB     00:00    
(36/56): perl-File-Copy-2.34-481.1.el9_6.noarch 751 kB/s |  20 kB     00:00    
(37/56): perl-File-Find-1.37-481.1.el9_6.noarch 1.0 MB/s |  25 kB     00:00    
(38/56): perl-FindBin-1.51-481.1.el9_6.noarch.r 497 kB/s |  14 kB     00:00    
(39/56): perl-lib-0.65-481.1.el9_6.ppc64le.rpm  616 kB/s |  14 kB     00:00    
(40/56): perl-locale-1.09-481.1.el9_6.noarch.rp 567 kB/s |  13 kB     00:00    
(41/56): perl-File-Compare-1.100.600-481.1.el9_ 107 kB/s |  13 kB     00:00    
(42/56): perl-devel-5.32.1-481.1.el9_6.ppc64le. 7.7 MB/s | 676 kB     00:00    
(43/56): gcc-plugin-annobin-11.5.0-11.el9.ppc64 1.6 MB/s |  39 kB     00:00    
(44/56): autoconf-2.69-41.el9.noarch.rpm         10 MB/s | 681 kB     00:00    
(45/56): systemtap-sdt-dtrace-5.3-3.el9.ppc64le 2.4 MB/s |  70 kB     00:00    
(46/56): annobin-12.98-1.el9.ppc64le.rpm         22 MB/s | 1.1 MB     00:00    
(47/56): cpp-11.5.0-11.el9.ppc64le.rpm           47 MB/s | 9.2 MB     00:00    
(48/56): emacs-filesystem-27.2-18.el9.noarch.rp  98 kB/s | 9.3 kB     00:00    
(49/56): libasan-11.5.0-11.el9.ppc64le.rpm      4.8 MB/s | 430 kB     00:00    
(50/56): libubsan-11.5.0-11.el9.ppc64le.rpm     4.9 MB/s | 197 kB     00:00    
(51/56): llvm-filesystem-20.1.8-3.el9.ppc64le.r 420 kB/s | 9.1 kB     00:00    
(52/56): systemtap-sdt-devel-5.3-3.el9.ppc64le. 1.1 MB/s |  69 kB     00:00    
(53/56): glibc-devel-2.34-231.el9_7.2.ppc64le.r 9.7 MB/s | 569 kB     00:00    
(54/56): llvm-libs-20.1.8-3.el9.ppc64le.rpm      46 MB/s |  30 MB     00:00    
(55/56): kernel-headers-5.14.0-611.26.1.el9_7.p  12 MB/s | 2.9 MB     00:00    
(56/56): gcc-11.5.0-11.el9.ppc64le.rpm           40 MB/s |  28 MB     00:00    
--------------------------------------------------------------------------------
Total                                            43 MB/s |  90 MB     00:02     
Running transaction check
Transaction check succeeded.
Running transaction test
Transaction test succeeded.
Running transaction
  Preparing        :                                                        1/1 
  Installing       : perl-File-Find-1.37-481.1.el9_6.noarch                1/56 
  Installing       : perl-File-Copy-2.34-481.1.el9_6.noarch                2/56 
  Installing       : perl-File-Compare-1.100.600-481.1.el9_6.noarch        3/56 
  Installing       : perl-DynaLoader-1.47-481.1.el9_6.ppc64le              4/56 
  Installing       : perl-threads-1:2.25-460.el9.ppc64le                   5/56 
  Installing       : perl-ExtUtils-ParseXS-1:3.40-460.el9.noarch           6/56 
  Installing       : libmpc-1.2.1-4.el9.ppc64le                            7/56 
  Installing       : htslib-1.23-1.el9.ppc64le                             8/56 
  Installing       : cpp-11.5.0-11.el9.ppc64le                             9/56 
  Installing       : perl-threads-shared-1.61-460.el9.ppc64le             10/56 
  Installing       : perl-Thread-Queue-3.14-460.el9.noarch                11/56 
  Installing       : perl-ExtUtils-Manifest-1:1.73-4.el9.noarch           12/56 
  Installing       : perl-ExtUtils-Command-2:7.60-3.el9.noarch            13/56 
  Installing       : kernel-headers-5.14.0-611.26.1.el9_7.ppc64le         14/56 
  Installing       : glibc-devel-2.34-231.el9_7.2.ppc64le                 15/56 
  Installing       : libxcrypt-devel-4.4.18-3.el9.ppc64le                 16/56 
  Installing       : llvm-filesystem-20.1.8-3.el9.ppc64le                 17/56 
  Installing       : libubsan-11.5.0-11.el9.ppc64le                       18/56 
  Installing       : libasan-11.5.0-11.el9.ppc64le                        19/56 
  Installing       : emacs-filesystem-1:27.2-18.el9.noarch                20/56 
  Installing       : perl-locale-1.09-481.1.el9_6.noarch                  21/56 
  Installing       : perl-version-7:0.99.28-4.el9.ppc64le                 22/56 
  Installing       : perl-lib-0.65-481.1.el9_6.ppc64le                    23/56 
  Installing       : perl-ExtUtils-Constant-0.25-481.1.el9_6.noarch       24/56 
  Installing       : perl-Benchmark-1.23-481.1.el9_6.noarch               25/56 
  Installing       : perl-Test-Harness-1:3.42-461.el9.noarch              26/56 
  Installing       : perl-AutoSplit-5.74-481.1.el9_6.noarch               27/56 
  Installing       : gsl-2.6-7.el9.ppc64le                                28/56 
  Installing       : perl-Devel-PPPort-3.62-4.el9.ppc64le                 29/56 
  Installing       : m4-1.4.19-1.el9.ppc64le                              30/56 
  Installing       : autoconf-2.69-41.el9.noarch                          31/56 
  Installing       : automake-1.16.2-8.el9.noarch                         32/56 
  Installing       : expat-2.5.0-5.el9_7.1.ppc64le                        33/56 
  Installing       : python3-setuptools-wheel-53.0.0-15.el9.noarch        34/56 
  Installing       : libatomic-11.5.0-11.el9.ppc64le                      35/56 
  Installing       : python3-pip-wheel-21.3.1-1.el9.noarch                36/56 
  Installing       : python3-3.9.25-2.el9_7.ppc64le                       37/56 
  Installing       : python3-libs-3.9.25-2.el9_7.ppc64le                  38/56 
  Installing       : python3-pyparsing-2.4.7-9.el9.noarch                 39/56 
  Installing       : systemtap-sdt-dtrace-5.3-3.el9.ppc64le               40/56 
  Installing       : systemtap-sdt-devel-5.3-3.el9.ppc64le                41/56 
  Installing       : make-1:4.3-8.el9.ppc64le                             42/56 
  Installing       : gcc-11.5.0-11.el9.ppc64le                            43/56 
  Running scriptlet: gcc-11.5.0-11.el9.ppc64le                            43/56 
  Installing       : perl-ExtUtils-Install-2.20-4.el9.noarch              44/56 
  Installing       : perl-devel-4:5.32.1-481.1.el9_6.ppc64le              45/56 
  Installing       : perl-ExtUtils-MakeMaker-2:7.60-3.el9.noarch          46/56 
  Installing       : libedit-3.1-38.20210216cvs.el9.ppc64le               47/56 
  Installing       : llvm-libs-20.1.8-3.el9.ppc64le                       48/56 
  Installing       : annobin-12.98-1.el9.ppc64le                          49/56 
  Running scriptlet: annobin-12.98-1.el9.ppc64le                          49/56 
  Installing       : perl-ExtUtils-Embed-1.35-481.1.el9_6.noarch          50/56 
  Installing       : gcc-plugin-annobin-11.5.0-11.el9.ppc64le             51/56 
  Running scriptlet: gcc-plugin-annobin-11.5.0-11.el9.ppc64le             51/56 
  Installing       : gsl-devel-2.6-7.el9.ppc64le                          52/56 
  Installing       : htslib-devel-1.23-1.el9.ppc64le                      53/56 
  Installing       : htslib-tools-1.23-1.el9.ppc64le                      54/56 
  Installing       : perl-FindBin-1.51-481.1.el9_6.noarch                 55/56 
  Installing       : zlib-devel-1.2.11-40.el9.ppc64le                     56/56 
  Running scriptlet: zlib-devel-1.2.11-40.el9.ppc64le                     56/56 
  Verifying        : htslib-1.23-1.el9.ppc64le                             1/56 
  Verifying        : htslib-devel-1.23-1.el9.ppc64le                       2/56 
  Verifying        : htslib-tools-1.23-1.el9.ppc64le                       3/56 
  Verifying        : python3-pyparsing-2.4.7-9.el9.noarch                  4/56 
  Verifying        : libedit-3.1-38.20210216cvs.el9.ppc64le                5/56 
  Verifying        : make-1:4.3-8.el9.ppc64le                              6/56 
  Verifying        : python3-pip-wheel-21.3.1-1.el9.noarch                 7/56 
  Verifying        : libatomic-11.5.0-11.el9.ppc64le                       8/56 
  Verifying        : python3-setuptools-wheel-53.0.0-15.el9.noarch         9/56 
  Verifying        : expat-2.5.0-5.el9_7.1.ppc64le                        10/56 
  Verifying        : python3-3.9.25-2.el9_7.ppc64le                       11/56 
  Verifying        : python3-libs-3.9.25-2.el9_7.ppc64le                  12/56 
  Verifying        : m4-1.4.19-1.el9.ppc64le                              13/56 
  Verifying        : perl-Devel-PPPort-3.62-4.el9.ppc64le                 14/56 
  Verifying        : perl-threads-shared-1.61-460.el9.ppc64le             15/56 
  Verifying        : gsl-2.6-7.el9.ppc64le                                16/56 
  Verifying        : libmpc-1.2.1-4.el9.ppc64le                           17/56 
  Verifying        : perl-ExtUtils-MakeMaker-2:7.60-3.el9.noarch          18/56 
  Verifying        : libxcrypt-devel-4.4.18-3.el9.ppc64le                 19/56 
  Verifying        : perl-ExtUtils-Install-2.20-4.el9.noarch              20/56 
  Verifying        : perl-ExtUtils-Manifest-1:1.73-4.el9.noarch           21/56 
  Verifying        : perl-ExtUtils-ParseXS-1:3.40-460.el9.noarch          22/56 
  Verifying        : perl-version-7:0.99.28-4.el9.ppc64le                 23/56 
  Verifying        : perl-ExtUtils-Command-2:7.60-3.el9.noarch            24/56 
  Verifying        : perl-Test-Harness-1:3.42-461.el9.noarch              25/56 
  Verifying        : perl-Thread-Queue-3.14-460.el9.noarch                26/56 
  Verifying        : perl-threads-1:2.25-460.el9.ppc64le                  27/56 
  Verifying        : gsl-devel-2.6-7.el9.ppc64le                          28/56 
  Verifying        : automake-1.16.2-8.el9.noarch                         29/56 
  Verifying        : zlib-devel-1.2.11-40.el9.ppc64le                     30/56 
  Verifying        : perl-AutoSplit-5.74-481.1.el9_6.noarch               31/56 
  Verifying        : perl-Benchmark-1.23-481.1.el9_6.noarch               32/56 
  Verifying        : perl-DynaLoader-1.47-481.1.el9_6.ppc64le             33/56 
  Verifying        : perl-ExtUtils-Constant-0.25-481.1.el9_6.noarch       34/56 
  Verifying        : perl-ExtUtils-Embed-1.35-481.1.el9_6.noarch          35/56 
  Verifying        : perl-File-Compare-1.100.600-481.1.el9_6.noarch       36/56 
  Verifying        : perl-File-Copy-2.34-481.1.el9_6.noarch               37/56 
  Verifying        : perl-File-Find-1.37-481.1.el9_6.noarch               38/56 
  Verifying        : perl-FindBin-1.51-481.1.el9_6.noarch                 39/56 
  Verifying        : perl-devel-4:5.32.1-481.1.el9_6.ppc64le              40/56 
  Verifying        : perl-lib-0.65-481.1.el9_6.ppc64le                    41/56 
  Verifying        : perl-locale-1.09-481.1.el9_6.noarch                  42/56 
  Verifying        : autoconf-2.69-41.el9.noarch                          43/56 
  Verifying        : cpp-11.5.0-11.el9.ppc64le                            44/56 
  Verifying        : gcc-plugin-annobin-11.5.0-11.el9.ppc64le             45/56 
  Verifying        : llvm-libs-20.1.8-3.el9.ppc64le                       46/56 
  Verifying        : systemtap-sdt-dtrace-5.3-3.el9.ppc64le               47/56 
  Verifying        : annobin-12.98-1.el9.ppc64le                          48/56 
  Verifying        : emacs-filesystem-1:27.2-18.el9.noarch                49/56 
  Verifying        : gcc-11.5.0-11.el9.ppc64le                            50/56 
  Verifying        : libasan-11.5.0-11.el9.ppc64le                        51/56 
  Verifying        : libubsan-11.5.0-11.el9.ppc64le                       52/56 
  Verifying        : llvm-filesystem-20.1.8-3.el9.ppc64le                 53/56 
  Verifying        : systemtap-sdt-devel-5.3-3.el9.ppc64le                54/56 
  Verifying        : glibc-devel-2.34-231.el9_7.2.ppc64le                 55/56 
  Verifying        : kernel-headers-5.14.0-611.26.1.el9_7.ppc64le         56/56 
Installed products updated.

Installed:
  annobin-12.98-1.el9.ppc64le                                                   
  autoconf-2.69-41.el9.noarch                                                   
  automake-1.16.2-8.el9.noarch                                                  
  cpp-11.5.0-11.el9.ppc64le                                                     
  emacs-filesystem-1:27.2-18.el9.noarch                                         
  expat-2.5.0-5.el9_7.1.ppc64le                                                 
  gcc-11.5.0-11.el9.ppc64le                                                     
  gcc-plugin-annobin-11.5.0-11.el9.ppc64le                                      
  glibc-devel-2.34-231.el9_7.2.ppc64le                                          
  gsl-2.6-7.el9.ppc64le                                                         
  gsl-devel-2.6-7.el9.ppc64le                                                   
  htslib-1.23-1.el9.ppc64le                                                     
  htslib-devel-1.23-1.el9.ppc64le                                               
  htslib-tools-1.23-1.el9.ppc64le                                               
  kernel-headers-5.14.0-611.26.1.el9_7.ppc64le                                  
  libasan-11.5.0-11.el9.ppc64le                                                 
  libatomic-11.5.0-11.el9.ppc64le                                               
  libedit-3.1-38.20210216cvs.el9.ppc64le                                        
  libmpc-1.2.1-4.el9.ppc64le                                                    
  libubsan-11.5.0-11.el9.ppc64le                                                
  libxcrypt-devel-4.4.18-3.el9.ppc64le                                          
  llvm-filesystem-20.1.8-3.el9.ppc64le                                          
  llvm-libs-20.1.8-3.el9.ppc64le                                                
  m4-1.4.19-1.el9.ppc64le                                                       
  make-1:4.3-8.el9.ppc64le                                                      
  perl-AutoSplit-5.74-481.1.el9_6.noarch                                        
  perl-Benchmark-1.23-481.1.el9_6.noarch                                        
  perl-Devel-PPPort-3.62-4.el9.ppc64le                                          
  perl-DynaLoader-1.47-481.1.el9_6.ppc64le                                      
  perl-ExtUtils-Command-2:7.60-3.el9.noarch                                     
  perl-ExtUtils-Constant-0.25-481.1.el9_6.noarch                                
  perl-ExtUtils-Embed-1.35-481.1.el9_6.noarch                                   
  perl-ExtUtils-Install-2.20-4.el9.noarch                                       
  perl-ExtUtils-MakeMaker-2:7.60-3.el9.noarch                                   
  perl-ExtUtils-Manifest-1:1.73-4.el9.noarch                                    
  perl-ExtUtils-ParseXS-1:3.40-460.el9.noarch                                   
  perl-File-Compare-1.100.600-481.1.el9_6.noarch                                
  perl-File-Copy-2.34-481.1.el9_6.noarch                                        
  perl-File-Find-1.37-481.1.el9_6.noarch                                        
  perl-FindBin-1.51-481.1.el9_6.noarch                                          
  perl-Test-Harness-1:3.42-461.el9.noarch                                       
  perl-Thread-Queue-3.14-460.el9.noarch                                         
  perl-devel-4:5.32.1-481.1.el9_6.ppc64le                                       
  perl-lib-0.65-481.1.el9_6.ppc64le                                             
  perl-locale-1.09-481.1.el9_6.noarch                                           
  perl-threads-1:2.25-460.el9.ppc64le                                           
  perl-threads-shared-1.61-460.el9.ppc64le                                      
  perl-version-7:0.99.28-4.el9.ppc64le                                          
  python3-3.9.25-2.el9_7.ppc64le                                                
  python3-libs-3.9.25-2.el9_7.ppc64le                                           
  python3-pip-wheel-21.3.1-1.el9.noarch                                         
  python3-pyparsing-2.4.7-9.el9.noarch                                          
  python3-setuptools-wheel-53.0.0-15.el9.noarch                                 
  systemtap-sdt-devel-5.3-3.el9.ppc64le                                         
  systemtap-sdt-dtrace-5.3-3.el9.ppc64le                                        
  zlib-devel-1.2.11-40.el9.ppc64le                                              

Complete!
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.el9.src.rpm
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

This system is not registered with an entitlement server. You can use subscription-manager to register.

Copr repository                                 189  B/s | 1.5 kB     00:08    
Red Hat Enterprise Linux - BaseOS                63 kB/s | 4.1 kB     00:00    
Red Hat Enterprise Linux - AppStream             44 kB/s | 4.5 kB     00:00    
Red Hat Enterprise Linux - CodeReady Linux Buil  66 kB/s | 4.5 kB     00:00    
Extra Packages for Enterprise Linux 9 - ppc64le 690 kB/s |  26 kB     00:00    
Package autoconf-2.69-41.el9.noarch is already installed.
Package automake-1.16.2-8.el9.noarch is already installed.
Package gcc-11.5.0-11.el9.ppc64le is already installed.
Package gsl-devel-2.6-7.el9.ppc64le is already installed.
Package htslib-devel-1.23-1.el9.ppc64le is already installed.
Package htslib-tools-1.23-1.el9.ppc64le is already installed.
Package make-1:4.3-8.el9.ppc64le is already installed.
Package perl-ExtUtils-Embed-1.35-481.1.el9_6.noarch is already installed.
Package perl-File-Temp-1:0.231.100-4.el9.noarch is already installed.
Package perl-FindBin-1.51-481.1.el9_6.noarch is already installed.
Package perl-Getopt-Long-1:2.52-4.el9.noarch is already installed.
Package perl-interpreter-4:5.32.1-481.1.el9_6.ppc64le is already installed.
Package zlib-devel-1.2.11-40.el9.ppc64le is already installed.
Dependencies resolved.
Nothing to do.
Complete!
Finish: build setup for bcftools-1.23-1.el9.src.rpm
Start: rpmbuild bcftools-1.23-1.el9.src.rpm
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1769040000
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.hWxAIv
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf bcftools-1.23
+ /usr/bin/bzip2 -dc /builddir/build/SOURCES/bcftools-1.23.tar.bz2
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd bcftools-1.23
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
Patch #0 (bcftools-1.23-perl-fix-stray-errors-ldflags.patch):
+ echo 'Patch #0 (bcftools-1.23-perl-fix-stray-errors-ldflags.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -p1 --fuzz=0
+ sed -i '1s|/usr/bin/env perl|/usr/bin/perl|' misc/color-chrs.pl misc/demo-flt.pl misc/run-roh.pl misc/vcfutils.pl misc/plot-vcfstats
+ sed -i '1s|/usr/bin/env python3\{0,1\}|/usr/bin/python3|' misc/gff2gff.py misc/guess-ploidy.py misc/plot-roh.py
+ RPM_EC=0
++ jobs -p
+ exit 0
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.23
+ autoreconf -fiv
patching file configure.ac
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.S5Cbft
autoreconf: Entering directory `.'
autoreconf: configure.ac: not using Gettext
autoreconf: running: aclocal --force 
configure.ac:94: warning: AC_CONFIG_SUBDIRS: you should use literals
../../lib/autoconf/status.m4:1097: AC_CONFIG_SUBDIRS is expanded from...
m4/ax_with_htslib.m4:55: AX_WITH_HTSLIB is expanded from...
configure.ac:94: the top level
autoreconf: configure.ac: tracing
configure.ac:94: warning: AC_CONFIG_SUBDIRS: you should use literals
../../lib/autoconf/status.m4:1097: AC_CONFIG_SUBDIRS is expanded from...
m4/ax_with_htslib.m4:55: AX_WITH_HTSLIB is expanded from...
configure.ac:94: the top level
autoreconf: configure.ac: subdirectory $HTSDIR not present
autoreconf: configure.ac: not using Libtool
autoreconf: running: /usr/bin/autoconf --force
configure.ac:94: warning: AC_CONFIG_SUBDIRS: you should use literals
../../lib/autoconf/status.m4:1097: AC_CONFIG_SUBDIRS is expanded from...
m4/ax_with_htslib.m4:55: AX_WITH_HTSLIB is expanded from...
configure.ac:94: the top level
autoreconf: running: /usr/bin/autoheader --force
configure.ac:94: warning: AC_CONFIG_SUBDIRS: you should use literals
../../lib/autoconf/status.m4:1097: AC_CONFIG_SUBDIRS is expanded from...
m4/ax_with_htslib.m4:55: AX_WITH_HTSLIB is expanded from...
configure.ac:94: the top level
autoreconf: configure.ac: not using Automake
autoreconf: Leaving directory `.'
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FCFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']'
++ find . -type f -name configure -print
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ '[' 1 = 1 ']'
+++ dirname ./configure
++ find . -name config.guess -o -name config.sub
+ for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./htslib-1.23/config.guess
+ '[' -f /usr/lib/rpm/redhat/config.guess ']'
+ /usr/bin/rm -f ./htslib-1.23/config.guess
++ basename ./htslib-1.23/config.guess
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./htslib-1.23/config.guess
'/usr/lib/rpm/redhat/config.guess' -> './htslib-1.23/config.guess'
+ for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./htslib-1.23/config.sub
+ '[' -f /usr/lib/rpm/redhat/config.sub ']'
+ /usr/bin/rm -f ./htslib-1.23/config.sub
++ basename ./htslib-1.23/config.sub
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./htslib-1.23/config.sub
'/usr/lib/rpm/redhat/config.sub' -> './htslib-1.23/config.sub'
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']'
++ find . -name ltmain.sh
+ ./configure --build=powerpc64le-redhat-linux-gnu --host=powerpc64le-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 ' --prefix=/usr --with-htslib=system --enable-perl-filters --enable-libgsl '--with-bcf-plugin-path=/usr/local/libexec/bcftools:$(plugindir)'
checking for powerpc64le-redhat-linux-gnu-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for C compiler warning flags... -Wall
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking for htslib/sam.h... yes
checking for hts_version in -lhts... yes
checking shared library type... plain .so
checking for library containing dlopen... none required
checking if the compiler accepts -rdynamic... yes
checking for zlib.h... yes
checking for inflate in -lz... yes
checking for gsl/gsl_version.h... yes
checking for library containing cblas_dgemm... -lgslcblas
checking for gsl_multifit_gradient in -lgsl... yes
configure: removing -specs=...redhat-hardened... from Perl options
checking for library containing Perl_call_pv... -lperl
checking for library containing regcomp... none required
configure: creating ./config.status
config.status: creating config.mk
config.status: creating config.h
configure: License has been changed to GPL.

Linking against the GNU scientific library requires that the resulting
binary is licensed using the GNU General Public License.  In particular,
this means you will have to follow the terms of this license in order
to distribute binary copies.  For more information see the INSTALL file.

Text of the GNU General Public License can be found in the LICENSE file,
or at http://www.gnu.org/copyleft/gpl.html

Information on the GNU Scientific Library, including the rationale for
its choice of license can be found at https://www.gnu.org/software/gsl/

+ /usr/bin/make -O -j5 V=1 VERBOSE=1
echo '#define BCFTOOLS_VERSION "1.23"' > version.h
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o tabix.o tabix.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfindex.o vcfindex.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfquery.o vcfquery.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfisec.o vcfisec.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcffilter.o vcffilter.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfsom.o vcfsom.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfstats.o vcfstats.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfgtcheck.o vcfgtcheck.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfview.o vcfview.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfroh.o vcfroh.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfconcat.o vcfconcat.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfnorm.o vcfnorm.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfmerge.o vcfmerge.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcmp.o vcmp.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o gvcf.o gvcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfcall.o vcfcall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o mcall.o mcall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfannotate.o vcfannotate.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o tsv2vcf.o tsv2vcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -fwrapv -fno-strict-aliasing -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/perl5/CORE -c -o filter.o filter.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfhead.o vcfhead.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o reheader.o reheader.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o HMM.o HMM.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfcnv.o vcfcnv.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bin.o bin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o ploidy.o ploidy.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfconvert.o vcfconvert.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o version.o version.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o hclust.o hclust.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o smpl_ilist.o smpl_ilist.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o consensus.o consensus.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o regidx.o regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o convert.o convert.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfbuf.o vcfbuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf.o bam2bcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o mpileup.o mpileup.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf_iaux.o bam2bcf_iaux.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf_indel.o bam2bcf_indel.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o read_consensus.o read_consensus.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfsort.o vcfsort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam_sample.o bam_sample.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o cols.o cols.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o dist.o dist.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o extsort.o extsort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf_edlib.o bam2bcf_edlib.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o ccall.o ccall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o em.o em.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o kmin.o kmin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o str_finder.o str_finder.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o csq.o csq.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o prob1.o prob1.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o edlib.o edlib.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o abuf.o abuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o mpileup2/mpileup.o mpileup2/mpileup.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o test/test-rbuf.o test/test-rbuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o peakfit.o peakfit.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.   -DPLUGINPATH='"/usr/local/libexec/bcftools:/usr/libexec/bcftools"' -c -o vcfplugin.o vcfplugin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o test/test-regidx.o test/test-regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o polysomy.o polysomy.c
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/GTsubset.so version.c plugins/GTsubset.c  
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o gff.o gff.c
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/add-variantkey.so version.c plugins/add-variantkey.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/GTisec.so version.c plugins/GTisec.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/allele-length.so version.c plugins/allele-length.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/af-dist.so bin.c version.c plugins/af-dist.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/check-ploidy.so version.c plugins/check-ploidy.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/check-sparsity.so version.c plugins/check-sparsity.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/counts.so version.c plugins/counts.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/fill-AN-AC.so version.c plugins/fill-AN-AC.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/contrast.so version.c plugins/contrast.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/dosage.so version.c plugins/dosage.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/color-chrs.so HMM.c version.c plugins/color-chrs.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/fixref.so version.c plugins/fixref.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/frameshifts.so version.c plugins/frameshifts.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/fixploidy.so ploidy.c regidx.c version.c plugins/fixploidy.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/fill-tags.so version.c plugins/fill-tags.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/ad-bias.so convert.c version.c plugins/ad-bias.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/guess-ploidy.so version.c plugins/guess-ploidy.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/impute-info.so version.c plugins/impute-info.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/gvcfz.so version.c plugins/gvcfz.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/missing2ref.so version.c plugins/missing2ref.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/isecGT.so smpl_ilist.c version.c plugins/isecGT.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/indel-stats.so version.c plugins/indel-stats.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/parental-origin.so version.c plugins/parental-origin.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/prune.so version.c plugins/prune.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/remove-overlaps.so version.c plugins/remove-overlaps.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/mendelian2.so version.c plugins/mendelian2.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/scatter.so version.c plugins/scatter.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/smpl-stats.so version.c plugins/smpl-stats.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/setGT.so version.c plugins/setGT.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/tag2tag.so version.c plugins/tag2tag.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/split.so version.c plugins/split.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/split-vep.so version.c plugins/split-vep.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/trio-switch-rate.so version.c plugins/trio-switch-rate.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/trio-stats.so version.c plugins/trio-stats.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -fwrapv -fno-strict-aliasing -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/perl5/CORE -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  -o plugins/fill-from-fasta.so filter.c version.c plugins/fill-from-fasta.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/trio-dnm2.so version.c plugins/trio-dnm2.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/variant-distance.so version.c plugins/variant-distance.c 
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.   -DUSE_GPL -c -o main.o main.c
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/variantkey-hex.so version.c plugins/variantkey-hex.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  -o test/test-rbuf test/test-rbuf.o -lz  
gcc  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -o test/test-regidx test/test-regidx.o regidx.o -lhts -lpthread -lz  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/vrfs.so version.c plugins/vrfs.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power9 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -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  -o plugins/vcf2table.so version.c plugins/vcf2table.c 
gcc -rdynamic  -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  -o bcftools main.o vcfindex.o tabix.o vcfstats.o vcfisec.o vcfmerge.o vcfquery.o vcffilter.o filter.o vcfsom.o vcfnorm.o vcfgtcheck.o vcfview.o vcfannotate.o vcfroh.o vcfconcat.o vcfcall.o mcall.o vcmp.o gvcf.o reheader.o convert.o vcfconvert.o tsv2vcf.o vcfcnv.o vcfhead.o HMM.o consensus.o ploidy.o bin.o hclust.o version.o regidx.o smpl_ilist.o csq.o vcfbuf.o mpileup.o bam2bcf.o bam2bcf_indel.o bam2bcf_iaux.o bam2bcf_edlib.o read_consensus.o bam_sample.o vcfsort.o cols.o extsort.o dist.o abuf.o ccall.o em.o prob1.o kmin.o str_finder.o gff.o edlib.o mpileup2/mpileup.o polysomy.o peakfit.o vcfplugin.o -lhts -lm -lz   -lgsl -lgslcblas -Wl,--enable-new-dtags -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fstack-protector-strong -L/usr/local/lib -L/usr/lib64/perl5/CORE -lperl -lpthread -lresolv -ldl -lm -lcrypt -lutil -lc -lpthread
lto-wrapper: warning: using serial compilation of 19 LTRANS jobs
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.FfUf5c
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le
++ dirname /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le
+ cd bcftools-1.23
+ /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le 'INSTALL=/usr/bin/install -p'
mkdir -p -m 755 /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/bin /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/man/man1 /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools
/usr/bin/install -p bcftools /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/bin
/usr/bin/install -p misc/color-chrs.pl misc/gff2gff misc/gff2gff.py misc/guess-ploidy.py misc/plot-vcfstats misc/plot-roh.py misc/roh-viz misc/run-roh.pl misc/vcfutils.pl misc/vrfs-variances /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/bin
/usr/bin/install -p -m 644 doc/bcftools.1 /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/man/man1
/usr/bin/install -p plugins/*.so /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools
+ /usr/bin/find-debuginfo -j5 --strict-build-id -m -i --build-id-seed 1.23-1.el9 --unique-debug-suffix -1.23-1.el9.ppc64le --unique-debug-src-base bcftools-1.23-1.el9.ppc64le --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/bcftools-1.23
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/GTsubset.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/bin/bcftools
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/GTisec.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/add-variantkey.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/ad-bias.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/af-dist.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/allele-length.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/check-ploidy.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/check-sparsity.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/color-chrs.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/contrast.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/counts.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/dosage.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/fill-AN-AC.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/fill-from-fasta.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/fill-tags.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/fixploidy.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/fixref.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/frameshifts.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/guess-ploidy.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/gvcfz.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/impute-info.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/indel-stats.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/isecGT.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/mendelian2.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/missing2ref.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/parental-origin.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/prune.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/remove-overlaps.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/scatter.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/setGT.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/smpl-stats.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/split-vep.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/split.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/tag2tag.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/trio-dnm2.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/trio-stats.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/trio-switch-rate.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/variant-distance.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/variantkey-hex.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/vcf2table.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/libexec/bcftools/vrfs.so
original debug info size: 8448kB, size after compression: 7552kB
/usr/bin/sepdebugcrcfix: Updated 42 CRC32s, 0 CRC32s did match.
6688 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
mangling shebang in /usr/bin/vrfs-variances from /usr/bin/env perl to #!/usr/bin/perl
mangling shebang in /usr/bin/roh-viz from /usr/bin/env perl to #!/usr/bin/perl
mangling shebang in /usr/bin/gff2gff from /usr/bin/env perl to #!/usr/bin/perl
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.HmyXQM
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.23
+ ldd bcftools
+ grep -E '/lib(64)?/libhts\.so\.'
	libhts.so.3 => /lib64/libhts.so.3 (0x00007fffa3970000)
+ make test
./test/test-rbuf
Inserted 1-9 starting at offset 5:
  5  6  7  8  9  0  1  2  3
  1  2  3  4  5  6  7  8  9
4th is 4
Deleting 1-2:
  7  8  9  0  1  2  3
  3  4  5  6  7  8  9
Prepending 0-8:
  8  9  0  1  2  3  4  5  6  7
  8  7  6  5  4  3  2  1  0  3
Expanding:
  8  9 10 11 12 13 14 15 16 17
  8  7  6  5  4  3  2  1  0  3
./test/test-regidx
REF_PATH=: ./test/test.pl --plugins --exec bgzip= --exec tabix= --htsdir= ${TEST_OPTS:-}
test_usage:
	bcftools
./test/test.pl: module IO::Pty not found; skipping usage tests
test_tabix:
	tabix /tmp/5IvE_zKmMM/merge.a.vcf.gz 2:3199812-3199812
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/merge.a.bcf 2:3199812-3199812
.. ok

test_tabix:
	tabix /tmp/5IvE_zKmMM/merge.a.vcf.gz 1:3000151-3000151
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/merge.a.bcf 1:3000151-3000151
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/5IvE_zKmMM/large_chrom_csi_limit.bcf chr20
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/5IvE_zKmMM/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/5IvE_zKmMM/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/5IvE_zKmMM/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/idx.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/idx.bcf.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/5IvE_zKmMM/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/5IvE_zKmMM/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/5IvE_zKmMM/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/empty.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/5IvE_zKmMM/empty.bcf.csi
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s - /tmp/5IvE_zKmMM/check.vcf.gz | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools stats -s - | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_check_merge:
	/builddir/build/BUILD/bcftools-1.23/misc/plot-vcfstats -m /tmp/5IvE_zKmMM/check.1.chk /tmp/5IvE_zKmMM/check.2.chk /tmp/5IvE_zKmMM/check.3.chk /tmp/5IvE_zKmMM/check.4.chk | grep -v 'plot-vcfstats' | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s -  /tmp/5IvE_zKmMM/stats.a.vcf.gz /tmp/5IvE_zKmMM/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s B  /tmp/5IvE_zKmMM/stats.a.vcf.gz /tmp/5IvE_zKmMM/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s -  /tmp/5IvE_zKmMM/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s - -i 'type="snp"'  /tmp/5IvE_zKmMM/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s -  /tmp/5IvE_zKmMM/stats.vaf.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -w 2 --no-version /tmp/5IvE_zKmMM/isec.match-id.1.1.vcf.gz /tmp/5IvE_zKmMM/isec.match-id.1.2.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -w 2 -c id --no-version /tmp/5IvE_zKmMM/isec.match-id.1.1.vcf.gz /tmp/5IvE_zKmMM/isec.match-id.1.2.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 /tmp/5IvE_zKmMM/isec.a.vcf.gz /tmp/5IvE_zKmMM/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -i"STRLEN(REF)==2" /tmp/5IvE_zKmMM/isec.a.vcf.gz /tmp/5IvE_zKmMM/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -c both /tmp/5IvE_zKmMM/isec.a.vcf.gz /tmp/5IvE_zKmMM/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -c any /tmp/5IvE_zKmMM/isec.a.vcf.gz /tmp/5IvE_zKmMM/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -C -c any /tmp/5IvE_zKmMM/isec.a.vcf.gz /tmp/5IvE_zKmMM/isec.b.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec --no-version   -T /tmp/5IvE_zKmMM/isec.tab.gz /tmp/5IvE_zKmMM/isec.a.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -Ob  -T /tmp/5IvE_zKmMM/isec.tab.gz /tmp/5IvE_zKmMM/isec.a.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/5IvE_zKmMM/isec-miss.1.1.vcf.gz /tmp/5IvE_zKmMM/isec-miss.1.2.vcf.gz /tmp/5IvE_zKmMM/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -R /builddir/build/BUILD/bcftools-1.23/test/isec-miss.1.regs.txt -n +1 /tmp/5IvE_zKmMM/isec-miss.1.1.vcf.gz /tmp/5IvE_zKmMM/isec-miss.1.2.vcf.gz /tmp/5IvE_zKmMM/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/5IvE_zKmMM/isec-miss.2.1.vcf.gz /tmp/5IvE_zKmMM/isec-miss.2.2.vcf.gz /tmp/5IvE_zKmMM/isec-miss.2.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -R /builddir/build/BUILD/bcftools-1.23/test/isec-miss.1.regs.txt -n +1 /tmp/5IvE_zKmMM/isec-miss.2.1.vcf.gz /tmp/5IvE_zKmMM/isec-miss.2.2.vcf.gz /tmp/5IvE_zKmMM/isec-miss.2.3.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.broken-gvcf.a.vcf.gz /tmp/5IvE_zKmMM/merge.broken-gvcf.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.broken-gvcf.a.vcf.gz /tmp/5IvE_zKmMM/merge.broken-gvcf.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.broken-gvcf.a.bcf /tmp/5IvE_zKmMM/merge.broken-gvcf.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.broken-gvcf.a.bcf /tmp/5IvE_zKmMM/merge.broken-gvcf.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.symbolic.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.symbolic.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.symbolic.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.symbolic.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.symbolic.1.a.bcf /tmp/5IvE_zKmMM/merge.symbolic.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.symbolic.1.a.bcf /tmp/5IvE_zKmMM/merge.symbolic.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge none /tmp/5IvE_zKmMM/merge.multiallelics.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.multiallelics.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/5IvE_zKmMM/merge.multiallelics.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.multiallelics.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge none /tmp/5IvE_zKmMM/merge.multiallelics.1.a.bcf /tmp/5IvE_zKmMM/merge.multiallelics.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/5IvE_zKmMM/merge.multiallelics.1.a.bcf /tmp/5IvE_zKmMM/merge.multiallelics.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge both /tmp/5IvE_zKmMM/merge.multiallelics.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.multiallelics.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/5IvE_zKmMM/merge.multiallelics.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.multiallelics.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge both /tmp/5IvE_zKmMM/merge.multiallelics.1.a.bcf /tmp/5IvE_zKmMM/merge.multiallelics.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/5IvE_zKmMM/merge.multiallelics.1.a.bcf /tmp/5IvE_zKmMM/merge.multiallelics.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge none /tmp/5IvE_zKmMM/merge.12.a.vcf.gz /tmp/5IvE_zKmMM/merge.12.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/5IvE_zKmMM/merge.12.a.vcf.gz /tmp/5IvE_zKmMM/merge.12.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge none /tmp/5IvE_zKmMM/merge.12.a.bcf /tmp/5IvE_zKmMM/merge.12.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/5IvE_zKmMM/merge.12.a.bcf /tmp/5IvE_zKmMM/merge.12.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge both /tmp/5IvE_zKmMM/merge.12.a.vcf.gz /tmp/5IvE_zKmMM/merge.12.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/5IvE_zKmMM/merge.12.a.vcf.gz /tmp/5IvE_zKmMM/merge.12.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge both /tmp/5IvE_zKmMM/merge.12.a.bcf /tmp/5IvE_zKmMM/merge.12.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/5IvE_zKmMM/merge.12.a.bcf /tmp/5IvE_zKmMM/merge.12.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.phased.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.phased.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.phased.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.phased.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.phased.1.a.bcf /tmp/5IvE_zKmMM/merge.phased.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.phased.1.a.bcf /tmp/5IvE_zKmMM/merge.phased.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.11.a.vcf.gz /tmp/5IvE_zKmMM/merge.11.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.11.a.vcf.gz /tmp/5IvE_zKmMM/merge.11.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.11.a.bcf /tmp/5IvE_zKmMM/merge.11.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.11.a.bcf /tmp/5IvE_zKmMM/merge.11.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AF:join /tmp/5IvE_zKmMM/merge.join.a.vcf.gz /tmp/5IvE_zKmMM/merge.join.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AF:join /tmp/5IvE_zKmMM/merge.join.a.vcf.gz /tmp/5IvE_zKmMM/merge.join.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AF:join /tmp/5IvE_zKmMM/merge.join.a.bcf /tmp/5IvE_zKmMM/merge.join.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AF:join /tmp/5IvE_zKmMM/merge.join.a.bcf /tmp/5IvE_zKmMM/merge.join.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-single /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-single /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-single /tmp/5IvE_zKmMM/merge.LPL.a.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-single /tmp/5IvE_zKmMM/merge.LPL.a.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 1 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 1 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 2 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 2 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 3 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 3 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 4 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 4 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 5 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/5IvE_zKmMM/merge.LPL.a.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.b.vcf.gz /tmp/5IvE_zKmMM/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 5 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/5IvE_zKmMM/merge.LPL.a.bcf /tmp/5IvE_zKmMM/merge.LPL.b.bcf /tmp/5IvE_zKmMM/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/5IvE_zKmMM/merge.a.vcf.gz /tmp/5IvE_zKmMM/merge.b.vcf.gz /tmp/5IvE_zKmMM/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/5IvE_zKmMM/merge.a.vcf.gz /tmp/5IvE_zKmMM/merge.b.vcf.gz /tmp/5IvE_zKmMM/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/5IvE_zKmMM/merge.a.bcf /tmp/5IvE_zKmMM/merge.b.bcf /tmp/5IvE_zKmMM/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/5IvE_zKmMM/merge.a.bcf /tmp/5IvE_zKmMM/merge.b.bcf /tmp/5IvE_zKmMM/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -Fx /tmp/5IvE_zKmMM/merge.a.vcf.gz /tmp/5IvE_zKmMM/merge.b.vcf.gz /tmp/5IvE_zKmMM/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -Fx /tmp/5IvE_zKmMM/merge.a.vcf.gz /tmp/5IvE_zKmMM/merge.b.vcf.gz /tmp/5IvE_zKmMM/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -Fx /tmp/5IvE_zKmMM/merge.a.bcf /tmp/5IvE_zKmMM/merge.b.bcf /tmp/5IvE_zKmMM/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -Fx /tmp/5IvE_zKmMM/merge.a.bcf /tmp/5IvE_zKmMM/merge.b.bcf /tmp/5IvE_zKmMM/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -0 /tmp/5IvE_zKmMM/merge.a.vcf.gz /tmp/5IvE_zKmMM/merge.b.vcf.gz /tmp/5IvE_zKmMM/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -0 /tmp/5IvE_zKmMM/merge.a.vcf.gz /tmp/5IvE_zKmMM/merge.b.vcf.gz /tmp/5IvE_zKmMM/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -0 /tmp/5IvE_zKmMM/merge.a.bcf /tmp/5IvE_zKmMM/merge.b.bcf /tmp/5IvE_zKmMM/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -0 /tmp/5IvE_zKmMM/merge.a.bcf /tmp/5IvE_zKmMM/merge.b.bcf /tmp/5IvE_zKmMM/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m none /tmp/5IvE_zKmMM/merge.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m none /tmp/5IvE_zKmMM/merge.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m none /tmp/5IvE_zKmMM/merge.2.a.bcf /tmp/5IvE_zKmMM/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m none /tmp/5IvE_zKmMM/merge.2.a.bcf /tmp/5IvE_zKmMM/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m both /tmp/5IvE_zKmMM/merge.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m both /tmp/5IvE_zKmMM/merge.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m both /tmp/5IvE_zKmMM/merge.2.a.bcf /tmp/5IvE_zKmMM/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m both /tmp/5IvE_zKmMM/merge.2.a.bcf /tmp/5IvE_zKmMM/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m all /tmp/5IvE_zKmMM/merge.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m all /tmp/5IvE_zKmMM/merge.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m all /tmp/5IvE_zKmMM/merge.2.a.bcf /tmp/5IvE_zKmMM/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m all /tmp/5IvE_zKmMM/merge.2.a.bcf /tmp/5IvE_zKmMM/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/5IvE_zKmMM/merge.3.a.vcf.gz /tmp/5IvE_zKmMM/merge.3.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/5IvE_zKmMM/merge.3.a.vcf.gz /tmp/5IvE_zKmMM/merge.3.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/5IvE_zKmMM/merge.3.a.bcf /tmp/5IvE_zKmMM/merge.3.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/5IvE_zKmMM/merge.3.a.bcf /tmp/5IvE_zKmMM/merge.3.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m id /tmp/5IvE_zKmMM/merge.4.a.vcf.gz /tmp/5IvE_zKmMM/merge.4.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m id /tmp/5IvE_zKmMM/merge.4.a.vcf.gz /tmp/5IvE_zKmMM/merge.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m id /tmp/5IvE_zKmMM/merge.4.a.bcf /tmp/5IvE_zKmMM/merge.4.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m id /tmp/5IvE_zKmMM/merge.4.a.bcf /tmp/5IvE_zKmMM/merge.4.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/gvcf.merge.1.vcf.gz /tmp/5IvE_zKmMM/gvcf.merge.2.vcf.gz /tmp/5IvE_zKmMM/gvcf.merge.3.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/gvcf.merge.1.vcf.gz /tmp/5IvE_zKmMM/gvcf.merge.2.vcf.gz /tmp/5IvE_zKmMM/gvcf.merge.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/gvcf.merge.1.bcf /tmp/5IvE_zKmMM/gvcf.merge.2.bcf /tmp/5IvE_zKmMM/gvcf.merge.3.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/gvcf.merge.1.bcf /tmp/5IvE_zKmMM/gvcf.merge.2.bcf /tmp/5IvE_zKmMM/gvcf.merge.3.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -m both,* /tmp/5IvE_zKmMM/merge.gvcf.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -m both,* /tmp/5IvE_zKmMM/merge.gvcf.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -m both,** /tmp/5IvE_zKmMM/merge.gvcf.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -m both,** /tmp/5IvE_zKmMM/merge.gvcf.2.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -i SRC:join /tmp/5IvE_zKmMM/merge.gvcf.3.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.3.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -i SRC:join /tmp/5IvE_zKmMM/merge.gvcf.3.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.3.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.4.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.4.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.4.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.4.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.4.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.4.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.4.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.5.a.vcf.gz /tmp/5IvE_zKmMM/merge.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.5.a.vcf.gz /tmp/5IvE_zKmMM/merge.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.5.a.bcf /tmp/5IvE_zKmMM/merge.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.5.a.bcf /tmp/5IvE_zKmMM/merge.5.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.6.a.vcf.gz /tmp/5IvE_zKmMM/merge.6.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.6.a.vcf.gz /tmp/5IvE_zKmMM/merge.6.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.6.a.bcf /tmp/5IvE_zKmMM/merge.6.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.6.a.bcf /tmp/5IvE_zKmMM/merge.6.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.7.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.7.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.7.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.7.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.7.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.7.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.7.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.7.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.8.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.8.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.8.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.8.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.8.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/5IvE_zKmMM/merge.7.a.vcf.gz /tmp/5IvE_zKmMM/merge.7.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/5IvE_zKmMM/merge.7.a.vcf.gz /tmp/5IvE_zKmMM/merge.7.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/5IvE_zKmMM/merge.7.a.bcf /tmp/5IvE_zKmMM/merge.7.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/5IvE_zKmMM/merge.7.a.bcf /tmp/5IvE_zKmMM/merge.7.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/merge.gvcf.9a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9c.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9d.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/merge.gvcf.9a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9c.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9d.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/merge.gvcf.9a.bcf /tmp/5IvE_zKmMM/merge.gvcf.9b.bcf /tmp/5IvE_zKmMM/merge.gvcf.9c.bcf /tmp/5IvE_zKmMM/merge.gvcf.9d.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/merge.gvcf.9a.bcf /tmp/5IvE_zKmMM/merge.gvcf.9b.bcf /tmp/5IvE_zKmMM/merge.gvcf.9c.bcf /tmp/5IvE_zKmMM/merge.gvcf.9d.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/5IvE_zKmMM/merge.gvcf.9a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9c.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9d.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/5IvE_zKmMM/merge.gvcf.9a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9c.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9d.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/5IvE_zKmMM/merge.gvcf.9a.bcf /tmp/5IvE_zKmMM/merge.gvcf.9b.bcf /tmp/5IvE_zKmMM/merge.gvcf.9c.bcf /tmp/5IvE_zKmMM/merge.gvcf.9d.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/5IvE_zKmMM/merge.gvcf.9a.bcf /tmp/5IvE_zKmMM/merge.gvcf.9b.bcf /tmp/5IvE_zKmMM/merge.gvcf.9c.bcf /tmp/5IvE_zKmMM/merge.gvcf.9d.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/merge.gvcf.9a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9c.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9d.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9e.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/merge.gvcf.9a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9c.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9d.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9e.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/merge.gvcf.9a.bcf /tmp/5IvE_zKmMM/merge.gvcf.9b.bcf /tmp/5IvE_zKmMM/merge.gvcf.9c.bcf /tmp/5IvE_zKmMM/merge.gvcf.9d.bcf /tmp/5IvE_zKmMM/merge.gvcf.9e.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/merge.gvcf.9a.bcf /tmp/5IvE_zKmMM/merge.gvcf.9b.bcf /tmp/5IvE_zKmMM/merge.gvcf.9c.bcf /tmp/5IvE_zKmMM/merge.gvcf.9d.bcf /tmp/5IvE_zKmMM/merge.gvcf.9e.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/5IvE_zKmMM/merge.gvcf.9a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9c.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9d.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9e.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/5IvE_zKmMM/merge.gvcf.9a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9c.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9d.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.9e.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/5IvE_zKmMM/merge.gvcf.9a.bcf /tmp/5IvE_zKmMM/merge.gvcf.9b.bcf /tmp/5IvE_zKmMM/merge.gvcf.9c.bcf /tmp/5IvE_zKmMM/merge.gvcf.9d.bcf /tmp/5IvE_zKmMM/merge.gvcf.9e.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/5IvE_zKmMM/merge.gvcf.9a.bcf /tmp/5IvE_zKmMM/merge.gvcf.9b.bcf /tmp/5IvE_zKmMM/merge.gvcf.9c.bcf /tmp/5IvE_zKmMM/merge.gvcf.9d.bcf /tmp/5IvE_zKmMM/merge.gvcf.9e.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.gvcf.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.gvcf.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.gvcf.10.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.gvcf.10.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m none /tmp/5IvE_zKmMM/merge.gvcf.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/5IvE_zKmMM/merge.gvcf.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m none /tmp/5IvE_zKmMM/merge.gvcf.10.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/5IvE_zKmMM/merge.gvcf.10.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa /tmp/5IvE_zKmMM/merge.gvcf.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa /tmp/5IvE_zKmMM/merge.gvcf.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa /tmp/5IvE_zKmMM/merge.gvcf.10.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa /tmp/5IvE_zKmMM/merge.gvcf.10.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/5IvE_zKmMM/merge.gvcf.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/5IvE_zKmMM/merge.gvcf.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/5IvE_zKmMM/merge.gvcf.10.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/5IvE_zKmMM/merge.gvcf.10.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.noidx.a.vcf.gz /tmp/5IvE_zKmMM/merge.noidx.b.vcf.gz /tmp/5IvE_zKmMM/merge.noidx.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.noidx.a.vcf.gz /tmp/5IvE_zKmMM/merge.noidx.b.vcf.gz /tmp/5IvE_zKmMM/merge.noidx.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.noidx.a.bcf /tmp/5IvE_zKmMM/merge.noidx.b.bcf /tmp/5IvE_zKmMM/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.noidx.a.bcf /tmp/5IvE_zKmMM/merge.noidx.b.bcf /tmp/5IvE_zKmMM/merge.noidx.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --no-index /builddir/build/BUILD/bcftools-1.23/test/merge.noidx.a.vcf /builddir/build/BUILD/bcftools-1.23/test/merge.noidx.b.vcf /builddir/build/BUILD/bcftools-1.23/test/merge.noidx.c.vcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --no-index /builddir/build/BUILD/bcftools-1.23/test/merge.noidx.a.vcf /builddir/build/BUILD/bcftools-1.23/test/merge.noidx.b.vcf /builddir/build/BUILD/bcftools-1.23/test/merge.noidx.c.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --no-index /tmp/5IvE_zKmMM/merge.noidx.a.bcf /tmp/5IvE_zKmMM/merge.noidx.b.bcf /tmp/5IvE_zKmMM/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --no-index /tmp/5IvE_zKmMM/merge.noidx.a.bcf /tmp/5IvE_zKmMM/merge.noidx.b.bcf /tmp/5IvE_zKmMM/merge.noidx.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.8.a.vcf.gz /tmp/5IvE_zKmMM/merge.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.8.a.vcf.gz /tmp/5IvE_zKmMM/merge.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.8.a.bcf /tmp/5IvE_zKmMM/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.8.a.bcf /tmp/5IvE_zKmMM/merge.8.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/5IvE_zKmMM/merge.8.a.vcf.gz /tmp/5IvE_zKmMM/merge.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/5IvE_zKmMM/merge.8.a.vcf.gz /tmp/5IvE_zKmMM/merge.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/5IvE_zKmMM/merge.8.a.bcf /tmp/5IvE_zKmMM/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/5IvE_zKmMM/merge.8.a.bcf /tmp/5IvE_zKmMM/merge.8.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.9.a.vcf.gz /tmp/5IvE_zKmMM/merge.9.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.9.a.vcf.gz /tmp/5IvE_zKmMM/merge.9.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/5IvE_zKmMM/merge.9.a.bcf /tmp/5IvE_zKmMM/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/5IvE_zKmMM/merge.9.a.bcf /tmp/5IvE_zKmMM/merge.9.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/5IvE_zKmMM/merge.9.a.vcf.gz /tmp/5IvE_zKmMM/merge.9.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/5IvE_zKmMM/merge.9.a.vcf.gz /tmp/5IvE_zKmMM/merge.9.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/5IvE_zKmMM/merge.9.a.bcf /tmp/5IvE_zKmMM/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/5IvE_zKmMM/merge.9.a.bcf /tmp/5IvE_zKmMM/merge.9.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m none /tmp/5IvE_zKmMM/merge.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/5IvE_zKmMM/merge.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m none /tmp/5IvE_zKmMM/merge.10.a.bcf /tmp/5IvE_zKmMM/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/5IvE_zKmMM/merge.10.a.bcf /tmp/5IvE_zKmMM/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m both /tmp/5IvE_zKmMM/merge.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m both /tmp/5IvE_zKmMM/merge.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m both /tmp/5IvE_zKmMM/merge.10.a.bcf /tmp/5IvE_zKmMM/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m both /tmp/5IvE_zKmMM/merge.10.a.bcf /tmp/5IvE_zKmMM/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m snp-ins-del /tmp/5IvE_zKmMM/merge.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m snp-ins-del /tmp/5IvE_zKmMM/merge.10.a.vcf.gz /tmp/5IvE_zKmMM/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m snp-ins-del /tmp/5IvE_zKmMM/merge.10.a.bcf /tmp/5IvE_zKmMM/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m snp-ins-del /tmp/5IvE_zKmMM/merge.10.a.bcf /tmp/5IvE_zKmMM/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.mrules.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.mrules.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.mrules.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.mrules.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.mrules.1.a.bcf /tmp/5IvE_zKmMM/merge.mrules.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.mrules.1.a.bcf /tmp/5IvE_zKmMM/merge.mrules.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/5IvE_zKmMM/merge.mrules.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.mrules.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/5IvE_zKmMM/merge.mrules.1.a.vcf.gz /tmp/5IvE_zKmMM/merge.mrules.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/5IvE_zKmMM/merge.mrules.1.a.bcf /tmp/5IvE_zKmMM/merge.mrules.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/5IvE_zKmMM/merge.mrules.1.a.bcf /tmp/5IvE_zKmMM/merge.mrules.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.5.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.5.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.5.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.5.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.5.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - --merge none /tmp/5IvE_zKmMM/merge.gvcf.5.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/5IvE_zKmMM/merge.gvcf.5.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - --merge none /tmp/5IvE_zKmMM/merge.gvcf.5.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/5IvE_zKmMM/merge.gvcf.5.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.5.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.11.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.11.b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.11.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.11.a.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.11.b.vcf.gz /tmp/5IvE_zKmMM/merge.gvcf.11.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.11.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.11.b.bcf /tmp/5IvE_zKmMM/merge.gvcf.11.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/5IvE_zKmMM/merge.gvcf.11.a.bcf /tmp/5IvE_zKmMM/merge.gvcf.11.b.bcf /tmp/5IvE_zKmMM/merge.gvcf.11.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' /tmp/5IvE_zKmMM/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'smpl_count(LAA)==1' /tmp/5IvE_zKmMM/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'smpl_count(LAA)==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'smpl_count(LAA)==1 & GT="hom"' /tmp/5IvE_zKmMM/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'smpl_count(LAA)==1 & GT="hom"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'GT="hom" & smpl_count(LAA)==1' /tmp/5IvE_zKmMM/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'GT="hom" & smpl_count(LAA)==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]="."' /tmp/5IvE_zKmMM/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]~"\."' /tmp/5IvE_zKmMM/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]~"\."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!="."' /tmp/5IvE_zKmMM/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!~"\."' /tmp/5IvE_zKmMM/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!~"\."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM %POS %ID %REF %ALT %QUAL %FILTER \t %INFO/CHROM %INFO/POS %INFO/ID %INFO/REF %INFO/ALT %INFO/QUAL %INFO/FILTER' /tmp/5IvE_zKmMM/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM %POS %ID %REF %ALT %QUAL %FILTER \t %INFO/CHROM %INFO/POS %INFO/ID %INFO/REF %INFO/ALT %INFO/QUAL %INFO/FILTER'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[ %CHROM] \t [ %POS] \t [ %ID] \t [ %REF] \t [ %ALT] \t [ %QUAL] \t [ %FILTER]' /tmp/5IvE_zKmMM/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[ %CHROM] \t [ %POS] \t [ %ID] \t [ %REF] \t [ %ALT] \t [ %QUAL] \t [ %FILTER]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[ %/CHROM] \t [ %/POS] \t [ %/ID] \t [ %/REF] \t [ %/ALT] \t [ %/QUAL] \t [ %/FILTER]' /tmp/5IvE_zKmMM/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[ %/CHROM] \t [ %/POS] \t [ %/ID] \t [ %/REF] \t [ %/ALT] \t [ %/QUAL] \t [ %/FILTER]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' /tmp/5IvE_zKmMM/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="."' /tmp/5IvE_zKmMM/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="0|1"' /tmp/5IvE_zKmMM/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="0|1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%INFO/AD\t%SUM(INFO/AD)' /tmp/5IvE_zKmMM/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%INFO/AD\t%SUM(INFO/AD)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t%SUM(FORMAT/AD)' /tmp/5IvE_zKmMM/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t%SUM(FORMAT/AD)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %SUM(FORMAT/AD)]' /tmp/5IvE_zKmMM/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %SUM(FORMAT/AD)]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %sSUM(FORMAT/AD)]' /tmp/5IvE_zKmMM/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %sSUM(FORMAT/AD)]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"' /tmp/5IvE_zKmMM/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"' /tmp/5IvE_zKmMM/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"' /tmp/5IvE_zKmMM/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/builddir/build/BUILD/bcftools-1.23/test/query.string.2.1.txt' /tmp/5IvE_zKmMM/query.string.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.string.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/builddir/build/BUILD/bcftools-1.23/test/query.string.2.1.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/builddir/build/BUILD/bcftools-1.23/test/query.string.2.2.txt' /tmp/5IvE_zKmMM/query.string.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.string.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/builddir/build/BUILD/bcftools-1.23/test/query.string.2.2.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%RSX\t%VKX\n' /tmp/5IvE_zKmMM/query.variantkey.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.variantkey.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%RSX\t%VKX\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XRI\n' -i'XRI[*]>1111' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XRI\n' -i'XRI[*]>1111'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XRF\n' -i'XRF[*]=2e6' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XRF\n' -i'XRF[*]=2e6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[2]~"H"' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[2]~"H"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]~"H"' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]~"H"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'I8=%I8 I16=%I16 I32=%I32 IF=%IF IA8=%IA8 IA16=%IA16 IA32=%IA32 IAF=%IAF IA8=%IA8{1} IA16=%IA16{1} IA32=%IA32{1} IAF=%IAF{1} [ %F8:%F16:%F32:%FF]\n' /tmp/5IvE_zKmMM/view.vectors.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.vectors.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'I8=%I8 I16=%I16 I32=%I32 IF=%IF IA8=%IA8 IA16=%IA16 IA32=%IA32 IAF=%IAF IA8=%IA8{1} IA16=%IA16{1} IA32=%IA32{1} IAF=%IAF{1} [ %F8:%F16:%F32:%FF]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"' /tmp/5IvE_zKmMM/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"' /tmp/5IvE_zKmMM/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"' /tmp/5IvE_zKmMM/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"' /tmp/5IvE_zKmMM/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n' /tmp/5IvE_zKmMM/query.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'IINT="."'  -f'%POS %IINT\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'IINT="."'  -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'IINT!="."' -f'%POS %IINT\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'IINT!="."' -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'IINT!="."' -f'%POS %IINT\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'IINT!="."' -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'IINT="."'  -f'%POS %IINT\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'IINT="."'  -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'IFLT="."'  -f'%POS %IFLT\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'IFLT="."'  -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'IFLT="."'  -f'%POS %IFLT\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'IFLT="."'  -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'ISTR="."'  -f'%POS %ISTR\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'ISTR="."'  -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'ISTR="."'  -f'%POS %ISTR\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'ISTR="."'  -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n' /tmp/5IvE_zKmMM/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n' /tmp/5IvE_zKmMM/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n' /tmp/5IvE_zKmMM/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n' /tmp/5IvE_zKmMM/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%LINE' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%LINE'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"' /tmp/5IvE_zKmMM/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"' /tmp/5IvE_zKmMM/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"' /tmp/5IvE_zKmMM/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"' /tmp/5IvE_zKmMM/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"' /tmp/5IvE_zKmMM/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%A_AF\t%B_AF\t%C_AF\n' -i'A_AF>=0.0001 || B_AF >= 0.0001 || C_AF >= 0.0001' /tmp/5IvE_zKmMM/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter-missing-floats.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%A_AF\t%B_AF\t%C_AF\n' -i'A_AF>=0.0001 || B_AF >= 0.0001 || C_AF >= 0.0001'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%A_AF\t%B_AF\t%C_AF\n' -e'A_AF>=0.0001 || B_AF >= 0.0001 || C_AF >= 0.0001' /tmp/5IvE_zKmMM/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter-missing-floats.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%A_AF\t%B_AF\t%C_AF\n' -e'A_AF>=0.0001 || B_AF >= 0.0001 || C_AF >= 0.0001'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n' /tmp/5IvE_zKmMM/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"' /tmp/5IvE_zKmMM/query.filter.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2' /tmp/5IvE_zKmMM/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."' /tmp/5IvE_zKmMM/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 |  FMT/DP="."' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 |  FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 &  FMT/GQ=589' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 &  FMT/GQ=589'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1' /tmp/5IvE_zKmMM/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"' /tmp/5IvE_zKmMM/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" &  GT~"2"' /tmp/5IvE_zKmMM/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" &  GT~"2"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1' /tmp/5IvE_zKmMM/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]\n' -i'AD[:0]+AD[:1] > 12' /tmp/5IvE_zKmMM/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]\n' -i'AD[:0]+AD[:1] > 12'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"' /tmp/5IvE_zKmMM/query.filter.4.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.4.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/query.56.out' /tmp/5IvE_zKmMM/view.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/view.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/query.56.out'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01' /tmp/5IvE_zKmMM/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD[:0],FMT/AD[:1])>0.01' /tmp/5IvE_zKmMM/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD[:0],FMT/AD[:1])>0.01'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01' /tmp/5IvE_zKmMM/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10' /tmp/5IvE_zKmMM/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210' /tmp/5IvE_zKmMM/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30' /tmp/5IvE_zKmMM/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2' /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2' /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"' /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B"  && FMT/TC[:GT]=="C"' /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B"  && FMT/TC[:GT]=="C"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."' /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)' /tmp/5IvE_zKmMM/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)' /tmp/5IvE_zKmMM/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)' /tmp/5IvE_zKmMM/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)' /tmp/5IvE_zKmMM/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1' /tmp/5IvE_zKmMM/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1' /tmp/5IvE_zKmMM/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1' /tmp/5IvE_zKmMM/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1' /tmp/5IvE_zKmMM/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT %AD %PBINOM(AD)\n]' -i'phred(binom(FMT/AD))>=0' /tmp/5IvE_zKmMM/query.pbinom.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.pbinom.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT %AD %PBINOM(AD)\n]' -i'phred(binom(FMT/AD))>=0'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904' /tmp/5IvE_zKmMM/query.filter.6.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.6.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6' /tmp/5IvE_zKmMM/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7' /tmp/5IvE_zKmMM/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2' /tmp/5IvE_zKmMM/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75' /tmp/5IvE_zKmMM/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2' /tmp/5IvE_zKmMM/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75' /tmp/5IvE_zKmMM/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2' /tmp/5IvE_zKmMM/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5' /tmp/5IvE_zKmMM/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1' /tmp/5IvE_zKmMM/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.8.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1' /tmp/5IvE_zKmMM/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.8.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]' /tmp/5IvE_zKmMM/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]' /tmp/5IvE_zKmMM/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5' /tmp/5IvE_zKmMM/query.filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.13.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS  %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2' /tmp/5IvE_zKmMM/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS  %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS  %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2' /tmp/5IvE_zKmMM/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS  %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n' /tmp/5IvE_zKmMM/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0 /tmp/5IvE_zKmMM/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3 /tmp/5IvE_zKmMM/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt /tmp/5IvE_zKmMM/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt /tmp/5IvE_zKmMM/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S ^/builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt /tmp/5IvE_zKmMM/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S ^/builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -l -S ^/builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt /tmp/5IvE_zKmMM/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -l -S ^/builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.txt /tmp/5IvE_zKmMM/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.txt /tmp/5IvE_zKmMM/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID~"s12"' /tmp/5IvE_zKmMM/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID~"s12"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="rs123"' /tmp/5IvE_zKmMM/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="rs123"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="abc"' /tmp/5IvE_zKmMM/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="abc"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID=@/builddir/build/BUILD/bcftools-1.23/test/query.filter.id.3.txt' /tmp/5IvE_zKmMM/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID=@/builddir/build/BUILD/bcftools-1.23/test/query.filter.id.3.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!="abc"' /tmp/5IvE_zKmMM/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!="abc"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!=@/builddir/build/BUILD/bcftools-1.23/test/query.filter.id.3.txt' /tmp/5IvE_zKmMM/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!=@/builddir/build/BUILD/bcftools-1.23/test/query.filter.id.3.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%FILTER\n' /tmp/5IvE_zKmMM/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%FILTER\n' /tmp/5IvE_zKmMM/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A;B"' -f'%FILTER\n' /tmp/5IvE_zKmMM/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n' /tmp/5IvE_zKmMM/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n' /tmp/5IvE_zKmMM/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n' /tmp/5IvE_zKmMM/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'DP%10==2' -f'[ %DP]\n' /tmp/5IvE_zKmMM/filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'DP%10==2' -f'[ %DP]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n' /tmp/5IvE_zKmMM/filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/filter.13.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\n]' /tmp/5IvE_zKmMM/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\n]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\t]\n' /tmp/5IvE_zKmMM/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\t]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n' /tmp/5IvE_zKmMM/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]' /tmp/5IvE_zKmMM/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n' /tmp/5IvE_zKmMM/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/5IvE_zKmMM/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/5IvE_zKmMM/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2' /tmp/5IvE_zKmMM/query.filter-or.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter-or.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 |  DP=2' /tmp/5IvE_zKmMM/query.filter-or.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/query.filter-or.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 |  DP=2'
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s /tmp/5IvE_zKmMM/norm.check-ref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.check-ref.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s /tmp/5IvE_zKmMM/norm.check-ref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.check-ref.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/norm.filter.txt' /tmp/5IvE_zKmMM/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/norm.filter.txt' /tmp/5IvE_zKmMM/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -i 'ALT!="C"' /tmp/5IvE_zKmMM/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -i 'ALT!="C"' /tmp/5IvE_zKmMM/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/norm.filter.txt' /tmp/5IvE_zKmMM/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/norm.filter.txt' /tmp/5IvE_zKmMM/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both -i 'ALT!="C"' /tmp/5IvE_zKmMM/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both -i 'ALT!="C"' /tmp/5IvE_zKmMM/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c e /tmp/5IvE_zKmMM/norm.6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.2.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c e /tmp/5IvE_zKmMM/norm.6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.2.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.breakend.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.breakend.1.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.breakend.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.breakend.1.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.sort.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.sort.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - -S lex /tmp/5IvE_zKmMM/norm.sort.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - -S lex /tmp/5IvE_zKmMM/norm.sort.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/5IvE_zKmMM/norm.join-missing-ploidy.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/5IvE_zKmMM/norm.join-missing-ploidy.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/5IvE_zKmMM/norm.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/5IvE_zKmMM/norm.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version  /tmp/5IvE_zKmMM/norm.symbolic.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version  /tmp/5IvE_zKmMM/norm.symbolic.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -cx /tmp/5IvE_zKmMM/norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -cx /tmp/5IvE_zKmMM/norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/5IvE_zKmMM/norm.split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/5IvE_zKmMM/norm.split.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/5IvE_zKmMM/norm.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/5IvE_zKmMM/norm.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- --force /tmp/5IvE_zKmMM/norm.split.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- --force /tmp/5IvE_zKmMM/norm.split.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/5IvE_zKmMM/norm.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/5IvE_zKmMM/norm.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- --keep-sum AD /tmp/5IvE_zKmMM/norm.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- --keep-sum AD /tmp/5IvE_zKmMM/norm.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/5IvE_zKmMM/norm.split.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/5IvE_zKmMM/norm.split.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/5IvE_zKmMM/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/5IvE_zKmMM/norm.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/5IvE_zKmMM/norm.merge.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/5IvE_zKmMM/norm.merge.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/5IvE_zKmMM/norm.merge.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/5IvE_zKmMM/norm.merge.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ -s /tmp/5IvE_zKmMM/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ -s /tmp/5IvE_zKmMM/norm.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -Nc s /tmp/5IvE_zKmMM/norm.setref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -Nc s /tmp/5IvE_zKmMM/norm.setref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version /tmp/5IvE_zKmMM/norm.telomere.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version /tmp/5IvE_zKmMM/norm.telomere.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d snps /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d snps /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d indels /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d indels /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d all /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d all /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d none /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d none /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/5IvE_zKmMM/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d none /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d none /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d indels /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d indels /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d any /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d any /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d snps /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d snps /tmp/5IvE_zKmMM/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/5IvE_zKmMM/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.rmdup.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/5IvE_zKmMM/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.rmdup.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d all /tmp/5IvE_zKmMM/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.rmdup.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d all /tmp/5IvE_zKmMM/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.rmdup.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s -a --old-rec-tag XX /tmp/5IvE_zKmMM/norm.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.2.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s -a --old-rec-tag XX /tmp/5IvE_zKmMM/norm.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.2.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/5IvE_zKmMM/norm.iupac.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.iupac.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/5IvE_zKmMM/norm.iupac.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.iupac.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/5IvE_zKmMM/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/5IvE_zKmMM/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s -i'alt="N"' --old-rec-tag XX /tmp/5IvE_zKmMM/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s -i'alt="N"' --old-rec-tag XX /tmp/5IvE_zKmMM/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --force
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --force -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -a
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -a -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . /tmp/5IvE_zKmMM/atomize.split.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . /tmp/5IvE_zKmMM/atomize.split.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/5IvE_zKmMM/atomize.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/5IvE_zKmMM/atomize.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/5IvE_zKmMM/atomize.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/5IvE_zKmMM/atomize.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/5IvE_zKmMM/atomize.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/5IvE_zKmMM/norm.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/5IvE_zKmMM/norm.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/5IvE_zKmMM/norm.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/5IvE_zKmMM/norm.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/5IvE_zKmMM/norm.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/5IvE_zKmMM/norm.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/5IvE_zKmMM/norm.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/5IvE_zKmMM/norm.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/5IvE_zKmMM/norm.m-any.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/5IvE_zKmMM/norm.m-any.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/5IvE_zKmMM/norm.phased-split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/5IvE_zKmMM/norm.phased-split.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/5IvE_zKmMM/norm.phased-join.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/5IvE_zKmMM/norm.phased-join.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/5IvE_zKmMM/norm.symbolic.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/5IvE_zKmMM/norm.symbolic.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/5IvE_zKmMM/norm.symbolic.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/5IvE_zKmMM/norm.symbolic.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/5IvE_zKmMM/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/5IvE_zKmMM/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -g /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.gff /tmp/5IvE_zKmMM/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -g /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.gff /tmp/5IvE_zKmMM/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/5IvE_zKmMM/norm.atom-split-norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.atom-split-norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/5IvE_zKmMM/norm.atom-split-norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.atom-split-norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/5IvE_zKmMM/norm.string-tags.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/5IvE_zKmMM/norm.string-tags.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +indels
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +indels -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +snps
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +snps -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +snps
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +snps -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - -i 'type="snp"' /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - -i 'type="snp"' /tmp/5IvE_zKmMM/norm.split.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/5IvE_zKmMM/norm.merge.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/5IvE_zKmMM/norm.merge.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/5IvE_zKmMM/norm.merge.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/5IvE_zKmMM/norm.merge.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -i 'INFO/TAG=@/builddir/build/BUILD/bcftools-1.23/test/filter.string.1.txt' /tmp/5IvE_zKmMM/filter.string.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -i 'INFO/TAG=@/builddir/build/BUILD/bcftools-1.23/test/filter.string.1.txt' /tmp/5IvE_zKmMM/filter.string.1.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -i 'FMT/TAG=@/builddir/build/BUILD/bcftools-1.23/test/filter.string.1.txt' /tmp/5IvE_zKmMM/filter.string.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -i 'FMT/TAG=@/builddir/build/BUILD/bcftools-1.23/test/filter.string.1.txt' /tmp/5IvE_zKmMM/filter.string.1.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -HA /tmp/5IvE_zKmMM/merge.gvcf.2.a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -HAA /tmp/5IvE_zKmMM/merge.gvcf.2.a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r 1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r 1 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r 1:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r 1:1-2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r 1:1,1:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r 1:1,1:2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r 1:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r 1:1-1 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1}
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1} | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1}:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1}:1-2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1}:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1}:1-1 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1} | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}:1-2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}:1-1 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}-2
.. ok, expected non-zero status

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/weird-chr-names.vcf.gz -r {1:1-1}-2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok, expected non-zero status

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -aUc1 -C1 -s NA00002 -v snps /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -aUc1 -C1 -s NA00002 -v snps /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -f PASS -Xks NA00003 /tmp/5IvE_zKmMM/view.vcf.gz -r20,Y
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -f PASS -Xks NA00003 /tmp/5IvE_zKmMM/view.vcf.gz -r20,Y | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -xs NA00003 /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -xs NA00003 /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -p /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -p /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -P /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -P /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -hm2 -M2 -q0.3 -Q0.7 /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -hm2 -M2 -q0.3 -Q0.7 /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Hu /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -GVsnps /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -GVsnps /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -ne 'INDEL=1 || PV4[0]<0.006' /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -ne 'INDEL=1 || PV4[0]<0.006' /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -s ^NA00003 /tmp/5IvE_zKmMM/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -s ^NA00003 /tmp/5IvE_zKmMM/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/5IvE_zKmMM/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/5IvE_zKmMM/view.omitgenotypes.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -G /tmp/5IvE_zKmMM/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -G /tmp/5IvE_zKmMM/view.omitgenotypes.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -HG /tmp/5IvE_zKmMM/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -a /tmp/5IvE_zKmMM/many.alleles.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -a /tmp/5IvE_zKmMM/many.alleles.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -asA /tmp/5IvE_zKmMM/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -asA /tmp/5IvE_zKmMM/view.vectors.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -asB /tmp/5IvE_zKmMM/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -asB /tmp/5IvE_zKmMM/view.vectors.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -asA /tmp/5IvE_zKmMM/view.vectors.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -asA /tmp/5IvE_zKmMM/view.vectors.2.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:0]="AAAAAA"' /tmp/5IvE_zKmMM/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:2]="C"' /tmp/5IvE_zKmMM/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:4]="EE"' /tmp/5IvE_zKmMM/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'FMT/FRS[*:1]="BB"' /tmp/5IvE_zKmMM/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'TXT0="text"' /tmp/5IvE_zKmMM/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23/test/view.chrs.tab /tmp/5IvE_zKmMM/view.chrs.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23/test/view.chrs.tab /tmp/5IvE_zKmMM/view.chrs.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -i 'POS>=3062917' /tmp/5IvE_zKmMM/filter.2.vcf.gz 1:3062917-3157410
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -i 'POS>=3062917' /tmp/5IvE_zKmMM/filter.2.vcf.gz 1:3062917-3157410 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r 1:10,1:12,1:10 /tmp/5IvE_zKmMM/idx.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r 1:1172777-1172804,1:1172806-1172808 /tmp/5IvE_zKmMM/idx.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23/test/idx.2.bed /tmp/5IvE_zKmMM/idx.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23/test/idx.3.bed /tmp/5IvE_zKmMM/idx.3.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23/test/idx.4.bed /tmp/5IvE_zKmMM/idx.4.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ht 2 /tmp/5IvE_zKmMM/view-t.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ht 3 /tmp/5IvE_zKmMM/view-t.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 0 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 1 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 2 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 0 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 1 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 2 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 0 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 1 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 2 /tmp/5IvE_zKmMM/overlap.vcf.gz 
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.1.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.1.vcf     | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.1.vcf -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.2.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.2.vcf     | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.2.vcf -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.3.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.3.vcf     | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.4.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.4.vcf     | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.4.vcf -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.5.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.5.vcf     | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23/test/view64bit.5.vcf -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -C5:nonmajor /tmp/5IvE_zKmMM/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -c6:nonmajor /tmp/5IvE_zKmMM/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -q0.3:major /tmp/5IvE_zKmMM/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i 'Gene.refGene=="RAD21L1"' /tmp/5IvE_zKmMM/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i 'Gene.refGene~"NOD"' /tmp/5IvE_zKmMM/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i 'LJB2_MutationTaster=="0.291000"' /tmp/5IvE_zKmMM/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -a /tmp/5IvE_zKmMM/view-a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23/test/view.sites.txt /tmp/5IvE_zKmMM/view.sites.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23/test/view.sites.txt /tmp/5IvE_zKmMM/view.sites.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23/test/view.sites.txt.gz /tmp/5IvE_zKmMM/view.sites.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23/test/view.sites.txt.gz /tmp/5IvE_zKmMM/view.sites.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -h 0 /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -h 1 /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -h 5 /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -h 22 /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -h 23 /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -n 0 /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -n 1 /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -n 5 /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -h 5 -n 5 < /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -s0 /tmp/5IvE_zKmMM/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ob /tmp/5IvE_zKmMM/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools head -s0
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -s1 /tmp/5IvE_zKmMM/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ob /tmp/5IvE_zKmMM/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools head -s1
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -s2 -h2 /tmp/5IvE_zKmMM/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ob /tmp/5IvE_zKmMM/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools head -s2 -h2
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -s sample1 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -s sample1 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -s ^sample2,sample3 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -s ^sample2,sample3 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -s sample3 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -s sample3 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -s ^sample1,sample2 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -s ^sample1,sample2 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.txt -S /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.ped /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.txt -S /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.ped /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mg0 /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mg0 /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.4.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.4.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.5.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.5.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -G /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.samples --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -G /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.samples --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.2.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.2.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.3.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.3.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.4.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.4.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.5.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.5.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.6.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.4.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.6.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.7.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.5.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.7.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.cals.1.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.cals.1.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.cals.1.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.cals.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.cals.2.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.cals.2.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/5IvE_zKmMM/mpileup.cals.2.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.cals.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -cv /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -cv /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23/test/call-G.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23/test/call-G.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/call-G.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/call-G.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -F AN_POP,AC_POP /builddir/build/BUILD/bcftools-1.23/test/call-G.2.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -F AN_POP,AC_POP /builddir/build/BUILD/bcftools-1.23/test/call-G.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -G /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.txt /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -G /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.txt /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -G /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.txt -a GP,GQ /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -G /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.txt -a GP,GQ /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'TXT0="text"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'TXT0="text"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FRS[*:1]="BB"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FRS[*:1]="BB"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:0]="AAAAAA"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:0]="AAAAAA"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:1]="BBB"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:1]="BBB"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:4]="EE"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:4]="EE"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/STR="XX"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/STR="XX"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FILTER="aaa"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.2.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FILTER="aaa"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -mx -g2 -G2 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -mx -g2 -G2 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'QUAL==59.2 || (INDEL=0 & (FMT/GQ=25 | FMT/DP=10))' -sModified -S. /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'QUAL==59.2 || (INDEL=0 & (FMT/GQ=25 | FMT/DP=10))' -sModified -S. /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -m+ /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -m+ /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -mx /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -mx /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -m+x /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -m+x /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -m+ /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+ /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -mx /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -mx /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -m+x /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+x /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'FMT/GT="0/0" && AC[*]=2' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'FMT/GT="0/0" && AC[*]=2' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AC[*]=2 && FMT/GT="0/0"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AC[*]=2 && FMT/GT="0/0"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'ALT="."' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'ALT="."' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -i 'FORMAT/TEST3<25' /builddir/build/BUILD/bcftools-1.23/test/filter.4.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -i 'FORMAT/TEST3<25' /builddir/build/BUILD/bcftools-1.23/test/filter.4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -i 'FORMAT/TEST4<25' /builddir/build/BUILD/bcftools-1.23/test/filter.4.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -i 'FORMAT/TEST4<25' /builddir/build/BUILD/bcftools-1.23/test/filter.4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="A"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="A"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="RR"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="RR"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="RA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="RA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="AR"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="AR"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="AA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="AA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="aA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="aA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="Aa"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="Aa"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="HOM"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="HOM"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="HET"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="HET"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="HAP"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="HAP"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[:1]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[:1]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[1:]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[1:]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'FR[0:1]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%FR]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'FR[0:1]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%FR]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[*]="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[*]="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[0:0]=="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[0:0]=="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[0:0]!="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[0:0]!="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'QUAL=="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%QUAL\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'QUAL=="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%QUAL\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'N_PASS(DP>32)=1' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'N_PASS(DP>32)=1' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_PASS(DP>32)=0.5' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_PASS(DP>32)=0.5' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_MISSING>=1/5' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_MISSING>=1/5' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_MISSING>=0.2' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_MISSING>=0.2' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_PASS(GT=="mis")>=1/5' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_PASS(GT=="mis")>=1/5' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_PASS(GT=="mis")>=0.2' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_PASS(GT=="mis")>=0.2' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -mx -s + -g2:mnp,indel,other /builddir/build/BUILD/bcftools-1.23/test/filter.7.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -mx -s + -g2:mnp,indel,other /builddir/build/BUILD/bcftools-1.23/test/filter.7.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'FORMAT/AO==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'FORMAT/AO==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MAX(FORMAT/AO[0:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MAX(FORMAT/AO[0:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'AVG(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'AVG(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MEDIAN(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MEDIAN(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'STDEV(FORMAT/AO[0:])=0.5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'STDEV(FORMAT/AO[0:])=0.5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'SUM(FORMAT/AO[0:])=7' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'SUM(FORMAT/AO[0:])=7' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'SMPL_MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'SMPL_MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'sMIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'sMIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'ABS(sAVG(FORMAT/AO)-3.66666)<1e-5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(sAVG(FORMAT/AO)-3.66666)<1e-5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'sMEDIAN(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'sMEDIAN(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'ABS(sSTDEV(FORMAT/AO)-1.2472191)<1e-5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(sSTDEV(FORMAT/AO)-1.2472191)<1e-5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'sSUM(FORMAT/AO)==11' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'sSUM(FORMAT/AO)==11' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'QUAL/FMT/AD==55' /builddir/build/BUILD/bcftools-1.23/test/filter.9.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'QUAL/FMT/AD==55' /builddir/build/BUILD/bcftools-1.23/test/filter.9.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'QUAL/INFO/AD==10' /builddir/build/BUILD/bcftools-1.23/test/filter.9.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'QUAL/INFO/AD==10' /builddir/build/BUILD/bcftools-1.23/test/filter.9.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'ABS(SMPL_MAX(FORMAT/AO))=5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(SMPL_MAX(FORMAT/AO))=5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'PHRED(AO[1:])>-4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'PHRED(AO[1:])>-4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'ABS(AO[1:])==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(AO[1:])==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'sum(AD[*]) > FORMAT/DP' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'sum(AD[*]) > FORMAT/DP' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'FORMAT/DP < sum(AD[*])' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'FORMAT/DP < sum(AD[*])' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'sum(AD[*]) < FORMAT/DP' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'sum(AD[*]) < FORMAT/DP' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'FORMAT/DP > sum(AD[*])' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'FORMAT/DP > sum(AD[*])' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 0 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 0 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 1 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 1 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 2 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 2 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter --soft-filter xxx --mask ^2:1005-1008 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask ^2:1005-1008 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23/bcftools sort -m 0 /builddir/build/BUILD/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23/bcftools sort -Ob -m 0 /builddir/build/BUILD/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23/bcftools sort -m 1000 /builddir/build/BUILD/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23/bcftools sort -Ob -m 1000 /builddir/build/BUILD/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /builddir/build/BUILD/bcftools-1.23/test/regions.tab /tmp/5IvE_zKmMM/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /builddir/build/BUILD/bcftools-1.23/test/regions.tab
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /builddir/build/BUILD/bcftools-1.23/test/regions.tab /tmp/5IvE_zKmMM/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/5IvE_zKmMM/regions.tab.gz /tmp/5IvE_zKmMM/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/5IvE_zKmMM/regions.tab.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/5IvE_zKmMM/regions.tab.gz /tmp/5IvE_zKmMM/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/5IvE_zKmMM/regions.bed /tmp/5IvE_zKmMM/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/5IvE_zKmMM/regions.bed
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/5IvE_zKmMM/regions.bed /tmp/5IvE_zKmMM/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/5IvE_zKmMM/regions.bed.gz /tmp/5IvE_zKmMM/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/5IvE_zKmMM/regions.bed.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/5IvE_zKmMM/regions.bed.gz /tmp/5IvE_zKmMM/regions.vcf.gz
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots36.bed.gz  -c CHROM,POS,-,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots36.bed.gz  -c CHROM,POS,-,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots36.bed.gz  -c CHROM,BEG,END,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots36.bed.gz  -c CHROM,BEG,END,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots35.vcf.gz  -c CHROM,POS,~ID,REF,ALT,INFO/src /tmp/5IvE_zKmMM/annotate35.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots35.vcf.gz  -c CHROM,POS,~ID,REF,ALT,INFO/src /tmp/5IvE_zKmMM/annotate35.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.escape.1.tab.gz  -c CHROM,POS,ISTR,FMT/FSTR /builddir/build/BUILD/bcftools-1.23/test/annotate.escape.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.escape.1.tab.gz  -c CHROM,POS,ISTR,FMT/FSTR /builddir/build/BUILD/bcftools-1.23/test/annotate.escape.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.match.1.tab.gz  -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.match.1.tab.gz  -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,POS,-,T_STR /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,POS,-,T_STR /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,FROM,TO,T_STR /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,FROM,TO,T_STR /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/5IvE_zKmMM/annotate.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/5IvE_zKmMM/annotate.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -x ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL /builddir/build/BUILD/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -x ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL /builddir/build/BUILD/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -x FORMAT /builddir/build/BUILD/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -x FORMAT /builddir/build/BUILD/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots4.vcf.gz  -c +INFO /tmp/5IvE_zKmMM/annotate4.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots4.vcf.gz  -c +INFO /tmp/5IvE_zKmMM/annotate4.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots4.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /builddir/build/BUILD/bcftools-1.23/test/annotate4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots4.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /builddir/build/BUILD/bcftools-1.23/test/annotate4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots10.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /builddir/build/BUILD/bcftools-1.23/test/annotate10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots10.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /builddir/build/BUILD/bcftools-1.23/test/annotate10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots11.tab.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /builddir/build/BUILD/bcftools-1.23/test/annotate2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots11.tab.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /builddir/build/BUILD/bcftools-1.23/test/annotate2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots11.vcf.gz  -c FMT /tmp/5IvE_zKmMM/annotate11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots11.vcf.gz  -c FMT /tmp/5IvE_zKmMM/annotate11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/5IvE_zKmMM/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -x FILTER/XX,INFO/XX --force /builddir/build/BUILD/bcftools-1.23/test/annotate14.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -x FILTER/XX,INFO/XX --force /builddir/build/BUILD/bcftools-1.23/test/annotate14.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate15.tab.gz  -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR -H '##FORMAT=<ID=FOO,Number=1,Type=String,Description="Some description">' -H '##INFO=<ID=BAR,Number=1,Type=Integer,Description="Some description">' /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate15.tab.gz  -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR -H '##FORMAT=<ID=FOO,Number=1,Type=String,Description="Some description">' -H '##INFO=<ID=BAR,Number=1,Type=Integer,Description="Some description">' /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -x FILTER /builddir/build/BUILD/bcftools-1.23/test/annotate16.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -x FILTER /builddir/build/BUILD/bcftools-1.23/test/annotate16.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate17.3.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate17.3.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate18.1.tab.gz  -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /builddir/build/BUILD/bcftools-1.23/test/annotate18.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate18.1.tab.gz  -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /builddir/build/BUILD/bcftools-1.23/test/annotate18.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate18.2.tab.gz  -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /builddir/build/BUILD/bcftools-1.23/test/annotate18.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate18.2.tab.gz  -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /builddir/build/BUILD/bcftools-1.23/test/annotate18.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -c INFO/FILTER:=FILTER /builddir/build/BUILD/bcftools-1.23/test/annotate19.dst.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -c INFO/FILTER:=FILTER /builddir/build/BUILD/bcftools-1.23/test/annotate19.dst.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER,FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER,FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=./FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=./FILTER /tmp/5IvE_zKmMM/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate20.src.vcf.gz  -c  FMT/GT /tmp/5IvE_zKmMM/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate20.src.vcf.gz  -c  FMT/GT /tmp/5IvE_zKmMM/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate20.src.vcf.gz  -c +FMT/GT /tmp/5IvE_zKmMM/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate20.src.vcf.gz  -c +FMT/GT /tmp/5IvE_zKmMM/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate20.src.vcf.gz  -c -FMT/GT /tmp/5IvE_zKmMM/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate20.src.vcf.gz  -c -FMT/GT /tmp/5IvE_zKmMM/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.multi.tab.gz  -c CHROM,POS,REF,ALT,ANN -l ANN:append /builddir/build/BUILD/bcftools-1.23/test/annotate.multi.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.multi.tab.gz  -c CHROM,POS,REF,ALT,ANN -l ANN:append /builddir/build/BUILD/bcftools-1.23/test/annotate.multi.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.missing-append.tab.gz  -c CHROM,POS,REF,ALT,STR,INT,FLT -l STR:append-missing,INT:append-missing,FLT:append-missing /builddir/build/BUILD/bcftools-1.23/test/annotate.missing-append.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.missing-append.tab.gz  -c CHROM,POS,REF,ALT,STR,INT,FLT -l STR:append-missing,INT:append-missing,FLT:append-missing /builddir/build/BUILD/bcftools-1.23/test/annotate.missing-append.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots9.tab.gz  -c CHROM,POS,REF,ALT,+ID /builddir/build/BUILD/bcftools-1.23/test/annotate9.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots9.tab.gz  -c CHROM,POS,REF,ALT,+ID /builddir/build/BUILD/bcftools-1.23/test/annotate9.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   --rename-annots /builddir/build/BUILD/bcftools-1.23/test/annotate21.txt /builddir/build/BUILD/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   --rename-annots /builddir/build/BUILD/bcftools-1.23/test/annotate21.txt /builddir/build/BUILD/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -c XX:=FORMAT/X-X,YY:=FORMAT/Y-Y,AA:=FORMAT/A-A,AA:=INFO/A-A,BB:=INFO/B-B,XX:=INFO/X-X,YY:=INFO/Y-Y,fltA:=FILTER/flt-A,fltB:=FILTER/flt-B,fltX:=FILTER/flt-X,fltY:=FILTER/flt-Y /builddir/build/BUILD/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -c XX:=FORMAT/X-X,YY:=FORMAT/Y-Y,AA:=FORMAT/A-A,AA:=INFO/A-A,BB:=INFO/B-B,XX:=INFO/X-X,YY:=INFO/Y-Y,fltA:=FILTER/flt-A,fltB:=FILTER/flt-B,fltX:=FILTER/flt-X,fltY:=FILTER/flt-Y /builddir/build/BUILD/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/5IvE_zKmMM/annotate22.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/5IvE_zKmMM/annotate22.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate23.tab.gz  -c CHROM,POS,~ID,REF,ALT,INFO/END /builddir/build/BUILD/bcftools-1.23/test/annotate23.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate23.tab.gz  -c CHROM,POS,~ID,REF,ALT,INFO/END /builddir/build/BUILD/bcftools-1.23/test/annotate23.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate24.src.vcf.gz  -c XX /tmp/5IvE_zKmMM/annotate24.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate24.src.vcf.gz  -c XX /tmp/5IvE_zKmMM/annotate24.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate25.tab.gz  -c CHROM,POS,ID,REF,ALT,~INFO/END /builddir/build/BUILD/bcftools-1.23/test/annotate25.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate25.tab.gz  -c CHROM,POS,ID,REF,ALT,~INFO/END /builddir/build/BUILD/bcftools-1.23/test/annotate25.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate26.tab.gz  -c CHROM,POS,-POS /builddir/build/BUILD/bcftools-1.23/test/annotate26.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate26.tab.gz  -c CHROM,POS,-POS /builddir/build/BUILD/bcftools-1.23/test/annotate26.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique /builddir/build/BUILD/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique /builddir/build/BUILD/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 -m XXX /builddir/build/BUILD/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 -m XXX /builddir/build/BUILD/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots.id.vcf.gz  -c ALT /tmp/5IvE_zKmMM/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots.id.vcf.gz  -c ALT /tmp/5IvE_zKmMM/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots.id.vcf.gz  -c +ALT /tmp/5IvE_zKmMM/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots.id.vcf.gz  -c +ALT /tmp/5IvE_zKmMM/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots.id.2.vcf.gz  --pair-logic some -c +ID /tmp/5IvE_zKmMM/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots.id.2.vcf.gz  --pair-logic some -c +ID /tmp/5IvE_zKmMM/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots.id.2.vcf.gz  --pair-logic any -c +ID /tmp/5IvE_zKmMM/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots.id.2.vcf.gz  --pair-logic any -c +ID /tmp/5IvE_zKmMM/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annotate27.tab.gz  -c CHROM,POS,REF,ALT,EVIDENCE /builddir/build/BUILD/bcftools-1.23/test/annotate27.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annotate27.tab.gz  -c CHROM,POS,REF,ALT,EVIDENCE /builddir/build/BUILD/bcftools-1.23/test/annotate27.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -m XXX /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -m XXX /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots34.tab.gz  -c CHROM,FROM,TO,INFO/END -H '##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate in reference for SV">' /builddir/build/BUILD/bcftools-1.23/test/annotate34.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots34.tab.gz  -c CHROM,FROM,TO,INFO/END -H '##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate in reference for SV">' /builddir/build/BUILD/bcftools-1.23/test/annotate34.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/5IvE_zKmMM/annots-mark.bed.gz  -c CHROM,FROM,TO -m TAG /builddir/build/BUILD/bcftools-1.23/test/annots-mark.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/5IvE_zKmMM/annots-mark.bed.gz  -c CHROM,FROM,TO -m TAG /builddir/build/BUILD/bcftools-1.23/test/annots-mark.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/5IvE_zKmMM/checkploidy.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/5IvE_zKmMM/checkploidy.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/5IvE_zKmMM/checkploidy.2.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/5IvE_zKmMM/checkploidy.2.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/5IvE_zKmMM/checkploidy.2.vcf.gz -- -m | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/5IvE_zKmMM/checkploidy.2.bcf -- -m | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +missing2ref --no-version /tmp/5IvE_zKmMM/plugin1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +missing2ref --no-version /tmp/5IvE_zKmMM/plugin1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/plugin1.vcf.gz -- -t . -n 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/plugin1.bcf -- -t . -n 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.vcf.gz -- -t q -n 0 -i 'GT~"." && FMT/DP=30 && GQ=150' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.bcf -- -t q -n 0 -i 'GT~"." && FMT/DP=30 && GQ=150' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.2.vcf.gz -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt]="het"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.2.bcf -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt]="het"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.2.vcf.gz -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt]="het" & binom(AD[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt])<0.1' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.2.bcf -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt]="het" & binom(AD[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt])<0.1' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.2.vcf.gz -- -t a -n i | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.2.bcf -- -t a -n i | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.vcf.gz -- -t a -n pM | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.bcf -- -t a -n pM | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.vcf.gz -- -t a -n pm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.bcf -- -t a -n pm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.vcf.gz -- -t a -n c:1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.bcf -- -t a -n c:1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.vcf.gz -- -t a -n c:"1|1" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.bcf -- -t a -n c:"1|1" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.vcf.gz -- -t a -n c:"m|M" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.bcf -- -t a -n c:"m|M" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.vcf.gz -- -t a -n c:0/1/1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.bcf -- -t a -n c:0/1/1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.vcf.gz -i 'GT="mis"' -- -t . -nc:././. | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.3.bcf -i 'GT="mis"' -- -t . -nc:././. | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.4.vcf.gz -- -t q -n . -e 'FMT/DP>90' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.4.bcf -- -t q -n . -e 'FMT/DP>90' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.4.vcf.gz -- -t q -n . -e 'FMT/DP>100' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.4.bcf -- -t q -n . -e 'FMT/DP>100' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.5.vcf.gz -- -t a -n X | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] AD should be declared as Number=R
[W::bcf_hdr_check_sanity] AD should be declared as Number=R
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.5.bcf -- -t a -n X | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.5.vcf.gz -- -t a -n c:0/X/X | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] AD should be declared as Number=R
[W::bcf_hdr_check_sanity] AD should be declared as Number=R
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.5.bcf -- -t a -n c:0/X/X | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.6.vcf.gz -- -t ./x -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.6.bcf -- -t ./x -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.6.vcf.gz -- -t . -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.6.bcf -- -t . -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.6.vcf.gz -- -t r:0.5 -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/5IvE_zKmMM/setGT.6.bcf -- -t r:0.5 -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-AN-AC --no-version /tmp/5IvE_zKmMM/plugin1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-AN-AC --no-version /tmp/5IvE_zKmMM/plugin1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/5IvE_zKmMM/dosage.vcf.gz -- -t PL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/5IvE_zKmMM/dosage.bcf -- -t PL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/5IvE_zKmMM/dosage.vcf.gz -- -t GL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/5IvE_zKmMM/dosage.bcf -- -t GL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/5IvE_zKmMM/dosage.vcf.gz -- -t GT | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/5IvE_zKmMM/dosage.bcf -- -t GT | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixploidy --no-version /tmp/5IvE_zKmMM/fixploidy.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23/test/fixploidy.samples -p /builddir/build/BUILD/bcftools-1.23/test/fixploidy.ploidy | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixploidy --no-version /tmp/5IvE_zKmMM/fixploidy.bcf -- -s /builddir/build/BUILD/bcftools-1.23/test/fixploidy.samples -p /builddir/build/BUILD/bcftools-1.23/test/fixploidy.ploidy | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +guess-ploidy /tmp/5IvE_zKmMM/view.PL.vcf.gz -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +guess-ploidy /tmp/5IvE_zKmMM/view.PL.bcf -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +guess-ploidy /tmp/5IvE_zKmMM/view.GL.vcf.gz -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +guess-ploidy /tmp/5IvE_zKmMM/view.GL.bcf -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/view.GL.vcf.gz -- -r --gl-to-pl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/view.GL.bcf -- -r --gl-to-pl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/view.GL.vcf.gz -- --gl-to-gp | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/view.GL.bcf -- --gl-to-gp | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/view.GP.vcf.gz -- -r --gp-to-gt -t 0.2 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/view.GP.bcf -- -r --gp-to-gt -t 0.2 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/tag2tag.LPL.1.vcf.gz -- --LXX-to-XX | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/tag2tag.LPL.1.bcf -- --LXX-to-XX | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/tag2tag.LPL.1.vcf.gz -- --LXX-to-XX -r | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/tag2tag.LPL.1.bcf -- --LXX-to-XX -r | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/tag2tag.LPL.1.vcf.gz -- --LXX-to-XX -r -d AD:0,PL:255 -s 3 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/5IvE_zKmMM/tag2tag.LPL.1.bcf -- --LXX-to-XX -r -d AD:0,PL:255 -s 3 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +add-variantkey /tmp/5IvE_zKmMM/query.variantkey.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +add-variantkey /tmp/5IvE_zKmMM/query.variantkey.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variantkey-hex /tmp/5IvE_zKmMM/query.variantkey.vcf.gz test/ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variantkey-hex /tmp/5IvE_zKmMM/query.variantkey.bcf test/ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +allele-length /tmp/5IvE_zKmMM/query.nucleotide.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +allele-length /tmp/5IvE_zKmMM/query.nucleotide.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/query.func.1.vcf.gz -- -t 'FMT/AB:1=float(FMT/AD[*:0] / ssum(FMT/AD[*]))' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/query.func.1.bcf -- -t 'FMT/AB:1=float(FMT/AD[*:0] / ssum(FMT/AD[*]))' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'F_MISSING' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'F_MISSING' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'F_MISSING:1=F_PASS(GT="mis")' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'F_MISSING:1=F_PASS(GT="mis")' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'N_MISSING:1=int(N_PASS(GT="mis"))' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'N_MISSING:1=int(N_PASS(GT="mis"))' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.vcf.gz -- -t 'FT:1=phred(fisher(INFO/DP4))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.bcf -- -t 'FT:1=phred(fisher(INFO/DP4))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.vcf.gz -- -t 'FT:1=phred(fisher(INFO/ADF[0,2],INFO/ADR[0,2]))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.bcf -- -t 'FT:1=phred(fisher(INFO/ADF[0,2],INFO/ADR[0,2]))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.vcf.gz -- -t 'FT:1=phred(fisher(INFO/ADF,INFO/ADR))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.bcf -- -t 'FT:1=phred(fisher(INFO/ADF,INFO/ADR))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.vcf.gz -- -t 'FMT/FT:1=phred(fisher(FMT/DP4))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.bcf -- -t 'FMT/FT:1=phred(fisher(FMT/DP4))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.vcf.gz -- -t 'FMT/FT:1=phred(fisher(FORMAT/ADF,FORMAT/ADR))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.bcf -- -t 'FMT/FT:1=phred(fisher(FORMAT/ADF,FORMAT/ADR))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.vcf.gz -- -t 'FMT/FT:1=phred(fisher(FORMAT/ADF[:0,1],FORMAT/ADR[:0,1]))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fisher.bcf -- -t 'FMT/FT:1=phred(fisher(FORMAT/ADF[:0,1],FORMAT/ADR[:0,1]))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/merge.a.vcf.gz -- -t AN,AC,AC_Hom,AC_Het,AC_Hemi | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/merge.a.bcf -- -t AN,AC,AC_Hom,AC_Het,AC_Hemi | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/view.vcf.gz -- -t AC,AN,AF,MAF,NS | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/view.bcf -- -t AC,AN,AF,MAF,NS | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/view.vcf.gz -- -t AC -S /builddir/build/BUILD/bcftools-1.23/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/view.bcf -- -t AC -S /builddir/build/BUILD/bcftools-1.23/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/view.vcf.gz -- -t "DP:1=int(sum(FORMAT/DP))" -S /builddir/build/BUILD/bcftools-1.23/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/view.bcf -- -t "DP:1=int(sum(FORMAT/DP))" -S /builddir/build/BUILD/bcftools-1.23/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/many-alts.vcf.gz -- -t AN,AC | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/many-alts.bcf -- -t AN,AC | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-hemi.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-hemi.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-hemi.vcf.gz -- -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-hemi.bcf -- -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-hwe.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-hwe.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-hwe.vcf.gz -- -t 'XX:1=F_PASS(GT="alt")' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-hwe.bcf -- -t 'XX:1=F_PASS(GT="alt")' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-rw.vcf.gz -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-rw.bcf -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AN0.vcf.gz -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AN0.bcf -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-VAF.vcf.gz -- -t VAF,VAF1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-VAF.bcf -- -t VAF,VAF1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.vcf.gz -- -t 'INFO/DP:1=int(sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.bcf -- -t 'INFO/DP:1=int(sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.vcf.gz -- -t 'INFO/DP:1=int(sum(INFO/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.bcf -- -t 'INFO/DP:1=int(sum(INFO/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.vcf.gz -- -t 'FORMAT/DP:1=int(smpl_sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.bcf -- -t 'FORMAT/DP:1=int(smpl_sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.vcf.gz -- -t 'XX=N_PASS(FMT/AD[:0]<=10)','YY=N_PASS(FMT/AD[:0]>10)' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.bcf -- -t 'XX=N_PASS(FMT/AD[:0]<=10)','YY=N_PASS(FMT/AD[:0]>10)' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.vcf.gz -- -t 'good=N_PASS(binom(FMT/AD[:0],FMT/AD[:1])>=1e-5)','bad=N_PASS(binom(FMT/AD[:0],FMT/AD[:1])<1e-5)' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/5IvE_zKmMM/fill-tags-AD.bcf -- -t 'good=N_PASS(binom(FMT/AD[:0],FMT/AD[:1])>=1e-5)','bad=N_PASS(binom(FMT/AD[:0],FMT/AD[:1])<1e-5)' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.vcf.gz  | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.bcf  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.vcf.gz -- -H | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.bcf -- -H | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.vcf.gz -- -Hm | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.bcf -- -Hm | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.vcf.gz -- -Hmv | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.bcf -- -Hmv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.vcf.gz -- -Hv | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.bcf -- -Hv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.vcf.gz -- -m | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.bcf -- -m | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.vcf.gz -- -mv | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.bcf -- -mv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.vcf.gz -- -v | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/5IvE_zKmMM/view.bcf -- -v | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-switch-rate /tmp/5IvE_zKmMM/trio.vcf.gz -- -p /builddir/build/BUILD/bcftools-1.23/test/trio.ped | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-switch-rate /tmp/5IvE_zKmMM/trio.bcf -- -p /builddir/build/BUILD/bcftools-1.23/test/trio.ped | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-stats /tmp/5IvE_zKmMM/trio-stats.vcf.gz -a 1 -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-stats /tmp/5IvE_zKmMM/trio-stats.bcf -a 1 -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-stats /tmp/5IvE_zKmMM/trio-stats.vcf.gz -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-stats /tmp/5IvE_zKmMM/trio-stats.bcf -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +smpl-stats /tmp/5IvE_zKmMM/indel-stats.vcf.gz | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +smpl-stats /tmp/5IvE_zKmMM/indel-stats.bcf | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/5IvE_zKmMM/indel-stats.vcf.gz | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/5IvE_zKmMM/indel-stats.bcf | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/5IvE_zKmMM/indel-stats.vcf.gz  -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/5IvE_zKmMM/indel-stats.bcf  -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/5IvE_zKmMM/indel-stats.vcf.gz  -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.2.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/5IvE_zKmMM/indel-stats.bcf  -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.2.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/5IvE_zKmMM/ad-bias.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/5IvE_zKmMM/ad-bias.bcf -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/5IvE_zKmMM/ad-bias.2.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/5IvE_zKmMM/ad-bias.2.bcf -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/5IvE_zKmMM/ad-bias.vcf.gz --no-version -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/5IvE_zKmMM/ad-bias.bcf --no-version -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/5IvE_zKmMM/ad-bias.2.vcf.gz --no-version -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/5IvE_zKmMM/ad-bias.2.bcf --no-version -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +af-dist /tmp/5IvE_zKmMM/af-dist.vcf.gz  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +af-dist /tmp/5IvE_zKmMM/af-dist.bcf  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -i /tmp/5IvE_zKmMM/fixref.2b.vcf.gz | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -i /tmp/5IvE_zKmMM/fixref.2b.vcf.gz | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.3.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/fixref.3.fa -m top | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.3.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/fixref.3.fa -m top | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m ref-alt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m ref-alt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m flip | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m flip | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m flip-all | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m flip-all | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m swap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/5IvE_zKmMM/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m swap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/5IvE_zKmMM/aa.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/aa.fa -c AA -h /builddir/build/BUILD/bcftools-1.23/test/aa.hdr -i 'TYPE="snp"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/5IvE_zKmMM/aa.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/aa.fa -c AA -h /builddir/build/BUILD/bcftools-1.23/test/aa.hdr -i 'TYPE="snp"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/5IvE_zKmMM/aa.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/aa.fa -c REF -N | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/5IvE_zKmMM/aa.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/aa.fa -c REF -N | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/5IvE_zKmMM/ref.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -c REF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/5IvE_zKmMM/ref.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -c REF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/5IvE_zKmMM/view.vcf.gz -- -s NA00001 | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/5IvE_zKmMM/view.bcf -- -s NA00001 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/5IvE_zKmMM/view.vcf.gz -- -s NA00001,NA00002 | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/5IvE_zKmMM/view.bcf -- -s NA00001,NA00002 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/5IvE_zKmMM/view.vcf.gz -- -s NA00001,NA00002,NA00003 | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/5IvE_zKmMM/view.bcf -- -s NA00001,NA00002,NA00003 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.vcf.gz -p child1,dad1,mom1 -md | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.bcf -p child1,dad1,mom1 -md | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.vcf.gz -p child1,dad1,mom1 -mg | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.bcf -p child1,dad1,mom1 -mg | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.vcf.gz -p child1,dad1,mom1 -me | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.bcf -p child1,dad1,mom1 -me | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.vcf.gz -p child1,dad1,mom1 -ma | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.bcf -p child1,dad1,mom1 -ma | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.vcf.gz -p child1,dad1,mom1 -mm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.bcf -p child1,dad1,mom1 -mm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.vcf.gz -p child1,dad1,mom1 | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/5IvE_zKmMM/mendelian.bcf -p child1,dad1,mom1 | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.vcf.gz -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 a,b -1 c | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.bcf -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 a,b -1 c | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.vcf.gz -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 /builddir/build/BUILD/bcftools-1.23/test/contrast0.txt -1 /builddir/build/BUILD/bcftools-1.23/test/contrast1.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.bcf -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 /builddir/build/BUILD/bcftools-1.23/test/contrast0.txt -1 /builddir/build/BUILD/bcftools-1.23/test/contrast1.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.vcf.gz -a NASSOC -0 a,b,c -1 d --force-samples | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.bcf -a NASSOC -0 a,b,c -1 d --force-samples | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.1.vcf.gz -a NOVELAL,NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.1.bcf -a NOVELAL,NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.1.vcf.gz -a NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/5IvE_zKmMM/contrast.1.bcf -a NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.1.vcf.gz -p proband,father,mother --ppl --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.1.bcf -p proband,father,mother --ppl --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.2.vcf.gz -p proband,father,mother --ppl --dnm-tag DNM:log --force-AD | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.2.bcf -p proband,father,mother --ppl --dnm-tag DNM:log --force-AD | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother --use-DNG | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.4.bcf -p proband,father,mother --use-DNG | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother           | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.4.bcf -p proband,father,mother           | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.4.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.4.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.5.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.5.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.5.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.5.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.6.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.6.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.6.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\t[\t%VA]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.6.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\t[\t%VA]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.7.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.7.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.7.vcf.gz -p proband,father,mother        --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.7.bcf -p proband,father,mother        --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.8.vcf.gz -p proband,father,mother  | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.8.bcf -p proband,father,mother  | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.9.vcf.gz -p 1X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.9.bcf -p 1X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.9.vcf.gz -p 2X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.9.bcf -p 2X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.10.vcf.gz -p proband,father,mother --with-pAD | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM][\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.10.bcf -p proband,father,mother --with-pAD | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM][\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.11.vcf.gz -p 1X:proband,father,mother | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM:%POS  DNM=[%DNM ]\tAD=[%AD ]\tQS=[%QS ]\tVAF=[%VAF ]\tVA=[%VA ]' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.11.bcf -p 1X:proband,father,mother | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM:%POS  DNM=[%DNM ]\tAD=[%AD ]\tQS=[%QS ]\tVAF=[%VAF ]\tVA=[%VA ]' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.11.vcf.gz -p 1X:proband,father,mother --strictly-novel | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM:%POS  DNM=[%DNM ]\tAD=[%AD ]\tQS=[%QS ]\tVAF=[%VAF ]\tVA=[%VA ]' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/5IvE_zKmMM/trio-dnm/trio-dnm.11.bcf -p 1X:proband,father,mother --strictly-novel | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM:%POS  DNM=[%DNM ]\tAD=[%AD ]\tQS=[%QS ]\tVAF=[%VAF ]\tVA=[%VA ]' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/5IvE_zKmMM/gvcfz.vcf.gz -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%END[\t%GT][\t%DP][\t%GQ][\t%RGQ]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/5IvE_zKmMM/gvcfz.bcf -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%END[\t%GT][\t%DP][\t%GQ][\t%RGQ]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/5IvE_zKmMM/gvcfz.vcf.gz -g 'PASS:GQ>10; FLT:-' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP][\t%GQ][\t%RGQ]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/5IvE_zKmMM/gvcfz.bcf -g 'PASS:GQ>10; FLT:-' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP][\t%GQ][\t%RGQ]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/5IvE_zKmMM/gvcfz.2.vcf.gz -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/5IvE_zKmMM/gvcfz.2.bcf -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.vcf.gz -m overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.bcf -m overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.vcf.gz -m overlap -M overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.bcf -m overlap -M overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.vcf.gz -m overlap -O t | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.bcf -m overlap -O t | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.vcf.gz -m overlap --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.bcf -m overlap --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.vcf.gz -m dup -M DUP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.bcf -m dup -M DUP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.vcf.gz -m dup -M unique --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.1.bcf -m dup -M unique --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.2.vcf.gz -m 'min(QUAL)' -M rmme | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.2.bcf -m 'min(QUAL)' -M rmme | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.3.vcf.gz -m 'min(QUAL)' -M rmme | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.3.bcf -m 'min(QUAL)' -M rmme | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.3.vcf.gz -m 'min(QUAL)' -M rmme --missing 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.3.bcf -m 'min(QUAL)' -M rmme --missing 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.3.vcf.gz -m 'min(QUAL)' -M rmme --missing DP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/5IvE_zKmMM/remove-overlaps.3.bcf -m 'min(QUAL)' -M rmme --missing DP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -s worst:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -s worst:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -s worst:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -s worst:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -s primary:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -s primary:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -s CANONICAL=YES:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -s CANONICAL=YES:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -s primary:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -s primary:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -s CANONICAL=YES:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -s CANONICAL=YES:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -s primary:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -s primary:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -s CANONICAL=YES:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -s CANONICAL=YES:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.2.vcf.gz -s worst -f'%POS\t%AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.2.bcf -s worst -f'%POS\t%AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.2.vcf.gz -s worst -f'%POS\t%AF\n' -a BCSQ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.2.bcf -s worst -f'%POS\t%AF\n' -a BCSQ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.2.vcf.gz -s worst -f'%POS\t%INFO/AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.2.bcf -s worst -f'%POS\t%INFO/AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.2.vcf.gz -s worst -f'%POS\t%INFO/AF\n' -a BCSQ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.2.bcf -s worst -f'%POS\t%INFO/AF\n' -a BCSQ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.3.vcf.gz -s worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.3.bcf -s worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.3.vcf.gz -s worst::worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.3.bcf -s worst::worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.3.vcf.gz -s worst -f'[%POS\t%SAMPLE\t%GT\t%Consequence\n]' -i'GT="alt"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.3.bcf -s worst -f'[%POS\t%SAMPLE\t%GT\t%Consequence\n]' -i'GT="alt"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d -H | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d -H | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d -HH | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d -HH | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A @@@ -d -H | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A @@@ -d -H | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.4.bcf -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n'         -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.4.bcf -f '%POS\t%BCSQ\n'         -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d -s ::worst | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.4.bcf -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d -s ::worst | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n'         -A tab -d -s ::worst | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.4.bcf -f '%POS\t%BCSQ\n'         -A tab -d -s ::worst | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -c gnomAD_NFE_AF:real,ALLELE_NUM:int | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -c gnomAD_NFE_AF:real,ALLELE_NUM:int | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -c gnomAD_NFE_AF,ALLELE_NUM          | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -c gnomAD_NFE_AF,ALLELE_NUM          | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.5.vcf.gz -s :synonymous    -c Consequence | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.5.bcf -s :synonymous    -c Consequence | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.5.vcf.gz -s :synonymous -x -c Consequence | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.5.bcf -s :synonymous -x -c Consequence | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.6.vcf.gz -c SAS_AF | grep ID=SAS_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.6.bcf -c SAS_AF | grep ID=SAS_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.6.vcf.gz -c - | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.6.bcf -c - | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.6.vcf.gz -c - -s worst | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.6.bcf -c - -s worst | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.7.vcf.gz --annotation 'ANN' -c IMPACT -i 'INFO/IMPACT[*] ~ "MODIFIER"' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.7.bcf --annotation 'ANN' -c IMPACT -i 'INFO/IMPACT[*] ~ "MODIFIER"' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.8.vcf.gz -a BCSQ -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.8.bcf -a BCSQ -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.8.vcf.gz         -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.8.bcf         -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.8.vcf.gz -a BCSQ -s worst -f '%POS\t%Consequence\t%amino_acid_change\t%BCSQ\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.8.bcf -a BCSQ -s worst -f '%POS\t%Consequence\t%amino_acid_change\t%BCSQ\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.8.vcf.gz         -s worst -f '%POS\t%Consequence\t%amino_acid_change\t%BCSQ\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.8.bcf         -s worst -f '%POS\t%Consequence\t%amino_acid_change\t%BCSQ\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.9.vcf.gz -a BCSQ -f '%CHROM\t%POS\t%REF\t%ALT\t%BCSQ\n' -d -A tab | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.9.bcf -a BCSQ -f '%CHROM\t%POS\t%REF\t%ALT\t%BCSQ\n' -d -A tab | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.9.vcf.gz -a BCSQ -f '%xPOS %xConsequence\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.9.bcf -a BCSQ -f '%xPOS %xConsequence\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.10.vcf.gz -a CSQ -f '%M_CAP_pred %M_CAP_score\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.10.bcf -a CSQ -f '%M_CAP_pred %M_CAP_score\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.10.vcf.gz -a CSQ -f '%xM_CAP_pred %xM_CAP_score\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.10.bcf -a CSQ -f '%xM_CAP_pred %xM_CAP_score\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.10.vcf.gz        -f '%xM_CAP_pred %xM_CAP_score\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.10.bcf        -f '%xM_CAP_pred %xM_CAP_score\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23/test/split-vep.gene-list.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23/test/split-vep.gene-list.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23/test/split-vep.mixed-list.txt --gene-list-fields Feature,SYMBOL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23/test/split-vep.mixed-list.txt --gene-list-fields Feature,SYMBOL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23/test/split-vep.gene-list.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23/test/split-vep.gene-list.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23/test/split-vep.mixed-list.txt --gene-list-fields Feature,SYMBOL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23/test/split-vep.mixed-list.txt --gene-list-fields Feature,SYMBOL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.broken-LoF.vcf.gz -d -f '%CHROM:%POS %Consequence %LoF_info\n' -a vep | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.broken-LoF.bcf -d -f '%CHROM:%POS %Consequence %LoF_info\n' -a vep | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.broken-LoF.vcf.gz -d -f '%CHROM:%POS %LoF_info\n' -a vep -i 'Consequence=="frameshift_variant"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.broken-LoF.bcf -d -f '%CHROM:%POS %LoF_info\n' -a vep -i 'Consequence=="frameshift_variant"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -f'%POS\n' -i'SYMBOL~"SAMD11"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -f'%POS\n' -i'SYMBOL~"SAMD11"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.vcf.gz -f'%POS\t%MAX_AF\n' -i'MAX_AF>0.999' -c MAX_AF,MAX_AF:float,MAX_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.bcf -f'%POS\t%MAX_AF\n' -i'MAX_AF>0.999' -c MAX_AF,MAX_AF:float,MAX_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.filter.vcf.gz -s worst -i'CSQ~"nonsense"' -f '%POS %Consequence %Feature %BIOTYPE' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.filter.bcf -s worst -i'CSQ~"nonsense"' -f '%POS %Consequence %Feature %BIOTYPE' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.filter.vcf.gz -s worst -i'CSQ~"nonsense"' -f '%POS %Consequence %Feature %BIOTYPE %CSQ' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.filter.bcf -s worst -i'CSQ~"nonsense"' -f '%POS %Consequence %Feature %BIOTYPE %CSQ' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL=YES | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL=YES | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL!=YES | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL!=YES | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL= | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL= | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s MANE_SELECT!='' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s MANE_SELECT!='' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.vcf.gz -s PolyPhen~damaging | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.select-tr-expr.bcf -s PolyPhen~damaging | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.types.vcf.gz -f'%cDNA_position %CDS_position %Protein_position' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.types.bcf -f'%cDNA_position %CDS_position %Protein_position' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.types.vcf.gz -f'%cDNA_position %CDS_position %Protein_position' -c cDNA_position:int,CDS_position:int,Protein_position:int | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.types.bcf -f'%cDNA_position %CDS_position %Protein_position' -c cDNA_position:int,CDS_position:int,Protein_position:int | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.filter-missing-bt2098.vcf.gz -e 'gnomad_genomes_AF >= 0.02' | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS 	 %gnomad_genomes_AF
' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.filter-missing-bt2098.bcf -e 'gnomad_genomes_AF >= 0.02' | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS 	 %gnomad_genomes_AF
' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.filter-missing-bt2098.vcf.gz -i 'gnomad_genomes_AF < 0.02 || gnomad_genomes_AF=="."' | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS 	 %gnomad_genomes_AF
' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/5IvE_zKmMM/split-vep.filter-missing-bt2098.bcf -i 'gnomad_genomes_AF < 0.02 || gnomad_genomes_AF=="."' | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS 	 %gnomad_genomes_AF
' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.vcf.gz -r 20:100 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.bcf -r 20:100 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.vcf.gz -r 20:101 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.bcf -r 20:101 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.vcf.gz -r 20:102 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.bcf -r 20:102 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.vcf.gz -r 20:103 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.bcf -r 20:103 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.vcf.gz -r 20:104 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/5IvE_zKmMM/parental-origin.bcf -r 20:104 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/5IvE_zKmMM/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/5IvE_zKmMM/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/5IvE_zKmMM/prune.2.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/5IvE_zKmMM/prune.2.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5 -f MaxR2 /tmp/5IvE_zKmMM/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5 -f MaxR2 /tmp/5IvE_zKmMM/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5  /tmp/5IvE_zKmMM/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5  /tmp/5IvE_zKmMM/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF /tmp/5IvE_zKmMM/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF /tmp/5IvE_zKmMM/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF -i 'GT="alt"' /tmp/5IvE_zKmMM/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF -i 'GT="alt"' /tmp/5IvE_zKmMM/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N 1st /tmp/5IvE_zKmMM/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N 1st /tmp/5IvE_zKmMM/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N rand --random-seed 1 /tmp/5IvE_zKmMM/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N rand --random-seed 1 /tmp/5IvE_zKmMM/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' -k /tmp/5IvE_zKmMM/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' -k /tmp/5IvE_zKmMM/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' /tmp/5IvE_zKmMM/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' /tmp/5IvE_zKmMM/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -m count=2 -i 'XX!=0' /tmp/5IvE_zKmMM/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -m count=2 -i 'XX!=0' /tmp/5IvE_zKmMM/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance /tmp/5IvE_zKmMM/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance /tmp/5IvE_zKmMM/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d nearest /tmp/5IvE_zKmMM/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d nearest /tmp/5IvE_zKmMM/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d fwd /tmp/5IvE_zKmMM/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d fwd /tmp/5IvE_zKmMM/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d rev /tmp/5IvE_zKmMM/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d rev /tmp/5IvE_zKmMM/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d both /tmp/5IvE_zKmMM/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d both /tmp/5IvE_zKmMM/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_plugin_vrfs:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vrfs -a /tmp/5IvE_zKmMM/mpileup.bam.list -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -s /builddir/build/BUILD/bcftools-1.23/test/vrfs.sites.txt | sort
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/5IvE_zKmMM/split.1.1   && cd /tmp/5IvE_zKmMM/split.1.1  && for f in A1.vcf A2.vcf A3.vcf B1.vcf B2.vcf C.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/5IvE_zKmMM/split.1.2 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.2.txt  && cd /tmp/5IvE_zKmMM/split.1.2  && for f in A.vcf B.vcf C.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/5IvE_zKmMM/split.1.3 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.3.txt  && cd /tmp/5IvE_zKmMM/split.1.3  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/5IvE_zKmMM/split.1.4 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.3.txt -i 'GT[0]="alt"'  && cd /tmp/5IvE_zKmMM/split.1.4  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/5IvE_zKmMM/split.1.5 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.3.txt -i 'GT="alt"'  && cd /tmp/5IvE_zKmMM/split.1.5  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/5IvE_zKmMM/split.1.6 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.4.txt -i 'GT="alt"'  && cd /tmp/5IvE_zKmMM/split.1.6  && for f in file1.vcf file2.vcf file3.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/5IvE_zKmMM/split.1.7 -G /builddir/build/BUILD/bcftools-1.23/test/split.grp.1.1.txt  && cd /tmp/5IvE_zKmMM/split.1.7  && for f in A.vcf A1.vcf A2.vcf B.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.2.vcf -o /tmp/5IvE_zKmMM/split.2.1   && cd /tmp/5IvE_zKmMM/split.2.1  && for f in A1_A1-1.vcf A1_A1-2.vcf A1_A1.vcf B1.vcf B2.vcf C.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_scatter:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23/test/scatter.1.vcf -o /tmp/5IvE_zKmMM/scatter.1.1 -n 3 && cd /tmp/5IvE_zKmMM/scatter.1.1 && cat 0.vcf 1.vcf 2.vcf | grep -v ^##
.. ok

test_plugin_scatter:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23/test/scatter.1.vcf -o /tmp/5IvE_zKmMM/scatter.1.2 -s 21,22 && cd /tmp/5IvE_zKmMM/scatter.1.2 && cat 21.vcf 22.vcf | grep -v ^##
.. ok

test_plugin_scatter:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23/test/scatter.1.vcf -o /tmp/5IvE_zKmMM/scatter.1.3 -s 21,22 -x X && cd /tmp/5IvE_zKmMM/scatter.1.3 && cat 21.vcf 22.vcf X.vcf | grep -v ^##
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -G  /tmp/5IvE_zKmMM/concat.1.a.vcf.gz /tmp/5IvE_zKmMM/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -G  /tmp/5IvE_zKmMM/concat.1.a.vcf.gz /tmp/5IvE_zKmMM/concat.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -G  /builddir/build/BUILD/bcftools-1.23/test/concat.1.a.vcf /builddir/build/BUILD/bcftools-1.23/test/concat.1.b.vcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version   /tmp/5IvE_zKmMM/concat.1.a.vcf.gz /tmp/5IvE_zKmMM/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob   /tmp/5IvE_zKmMM/concat.1.a.vcf.gz /tmp/5IvE_zKmMM/concat.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version   /builddir/build/BUILD/bcftools-1.23/test/concat.1.a.vcf /builddir/build/BUILD/bcftools-1.23/test/concat.1.b.vcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version   /tmp/5IvE_zKmMM/concat.1.a.bcf /tmp/5IvE_zKmMM/concat.1.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob   /tmp/5IvE_zKmMM/concat.1.a.bcf /tmp/5IvE_zKmMM/concat.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -a  /tmp/5IvE_zKmMM/concat.2.a.vcf.gz /tmp/5IvE_zKmMM/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -a  /tmp/5IvE_zKmMM/concat.2.a.vcf.gz /tmp/5IvE_zKmMM/concat.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -a  /tmp/5IvE_zKmMM/concat.2.a.bcf /tmp/5IvE_zKmMM/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -a  /tmp/5IvE_zKmMM/concat.2.a.bcf /tmp/5IvE_zKmMM/concat.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -aD  /tmp/5IvE_zKmMM/concat.2.a.vcf.gz /tmp/5IvE_zKmMM/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -aD  /tmp/5IvE_zKmMM/concat.2.a.vcf.gz /tmp/5IvE_zKmMM/concat.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -aD  /tmp/5IvE_zKmMM/concat.2.a.bcf /tmp/5IvE_zKmMM/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -aD  /tmp/5IvE_zKmMM/concat.2.a.bcf /tmp/5IvE_zKmMM/concat.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/5IvE_zKmMM/concat.3.a.vcf.gz /tmp/5IvE_zKmMM/concat.3.b.vcf.gz /tmp/5IvE_zKmMM/concat.3.0.vcf.gz /tmp/5IvE_zKmMM/concat.3.c.vcf.gz /tmp/5IvE_zKmMM/concat.3.d.vcf.gz /tmp/5IvE_zKmMM/concat.3.e.vcf.gz /tmp/5IvE_zKmMM/concat.3.f.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/5IvE_zKmMM/concat.3.a.vcf.gz /tmp/5IvE_zKmMM/concat.3.b.vcf.gz /tmp/5IvE_zKmMM/concat.3.0.vcf.gz /tmp/5IvE_zKmMM/concat.3.c.vcf.gz /tmp/5IvE_zKmMM/concat.3.d.vcf.gz /tmp/5IvE_zKmMM/concat.3.e.vcf.gz /tmp/5IvE_zKmMM/concat.3.f.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/5IvE_zKmMM/concat.3.a.bcf /tmp/5IvE_zKmMM/concat.3.b.bcf /tmp/5IvE_zKmMM/concat.3.0.bcf /tmp/5IvE_zKmMM/concat.3.c.bcf /tmp/5IvE_zKmMM/concat.3.d.bcf /tmp/5IvE_zKmMM/concat.3.e.bcf /tmp/5IvE_zKmMM/concat.3.f.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/5IvE_zKmMM/concat.3.a.bcf /tmp/5IvE_zKmMM/concat.3.b.bcf /tmp/5IvE_zKmMM/concat.3.0.bcf /tmp/5IvE_zKmMM/concat.3.c.bcf /tmp/5IvE_zKmMM/concat.3.d.bcf /tmp/5IvE_zKmMM/concat.3.e.bcf /tmp/5IvE_zKmMM/concat.3.f.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
Random seed for test_naive_concat: 3724864615
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --naive-force /tmp/5IvE_zKmMM/naive_concat.0.bcf /tmp/5IvE_zKmMM/naive_concat.1.bcf /tmp/5IvE_zKmMM/naive_concat.2.bcf /tmp/5IvE_zKmMM/naive_concat.3.bcf /tmp/5IvE_zKmMM/naive_concat.4.bcf /tmp/5IvE_zKmMM/naive_concat.5.bcf /tmp/5IvE_zKmMM/naive_concat.6.bcf /tmp/5IvE_zKmMM/naive_concat.7.bcf /tmp/5IvE_zKmMM/naive_concat.8.bcf /tmp/5IvE_zKmMM/naive_concat.9.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --naive /tmp/5IvE_zKmMM/naive_concat.0.vcf.gz /tmp/5IvE_zKmMM/naive_concat.1.vcf.gz /tmp/5IvE_zKmMM/naive_concat.2.vcf.gz /tmp/5IvE_zKmMM/naive_concat.3.vcf.gz /tmp/5IvE_zKmMM/naive_concat.4.vcf.gz /tmp/5IvE_zKmMM/naive_concat.5.vcf.gz /tmp/5IvE_zKmMM/naive_concat.6.vcf.gz /tmp/5IvE_zKmMM/naive_concat.7.vcf.gz /tmp/5IvE_zKmMM/naive_concat.8.vcf.gz /tmp/5IvE_zKmMM/naive_concat.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l  /tmp/5IvE_zKmMM/concat.4.a.vcf.gz /tmp/5IvE_zKmMM/concat.4.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l  /tmp/5IvE_zKmMM/concat.4.a.vcf.gz /tmp/5IvE_zKmMM/concat.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l  /tmp/5IvE_zKmMM/concat.4.a.bcf /tmp/5IvE_zKmMM/concat.4.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l  /tmp/5IvE_zKmMM/concat.4.a.bcf /tmp/5IvE_zKmMM/concat.4.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/5IvE_zKmMM/concat.5.a.vcf.gz /tmp/5IvE_zKmMM/concat.5.b.vcf.gz /tmp/5IvE_zKmMM/concat.5.c.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/5IvE_zKmMM/concat.5.a.vcf.gz /tmp/5IvE_zKmMM/concat.5.b.vcf.gz /tmp/5IvE_zKmMM/concat.5.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/5IvE_zKmMM/concat.5.a.bcf /tmp/5IvE_zKmMM/concat.5.b.bcf /tmp/5IvE_zKmMM/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/5IvE_zKmMM/concat.5.a.bcf /tmp/5IvE_zKmMM/concat.5.b.bcf /tmp/5IvE_zKmMM/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-force  /tmp/5IvE_zKmMM/concat.5.a.bcf /tmp/5IvE_zKmMM/concat.5.b.bcf /tmp/5IvE_zKmMM/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-force  /tmp/5IvE_zKmMM/concat.5.a.bcf /tmp/5IvE_zKmMM/concat.5.b.bcf /tmp/5IvE_zKmMM/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -G -a -D  /tmp/5IvE_zKmMM/concat.5.a.vcf.gz /tmp/5IvE_zKmMM/concat.5.b.vcf.gz /tmp/5IvE_zKmMM/concat.5.c.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -G -a -D  /tmp/5IvE_zKmMM/concat.5.a.vcf.gz /tmp/5IvE_zKmMM/concat.5.b.vcf.gz /tmp/5IvE_zKmMM/concat.5.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -G -a -D  /tmp/5IvE_zKmMM/concat.5.a.bcf /tmp/5IvE_zKmMM/concat.5.b.bcf /tmp/5IvE_zKmMM/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -G -a -D  /tmp/5IvE_zKmMM/concat.5.a.bcf /tmp/5IvE_zKmMM/concat.5.b.bcf /tmp/5IvE_zKmMM/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr /builddir/build/BUILD/bcftools-1.23/test/empty.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/empty.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr /tmp/5IvE_zKmMM/empty.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/empty.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr /tmp/5IvE_zKmMM/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/5IvE_zKmMM/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /builddir/build/BUILD/bcftools-1.23/test/reheader.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /tmp/5IvE_zKmMM/reheader.2.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /tmp/5IvE_zKmMM/reheader.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /builddir/build/BUILD/bcftools-1.23/test/reheader.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /tmp/5IvE_zKmMM/reheader.2.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /tmp/5IvE_zKmMM/reheader.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.3.fai /builddir/build/BUILD/bcftools-1.23/test/reheader.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.3.fai /tmp/5IvE_zKmMM/reheader.3.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.3.fai /tmp/5IvE_zKmMM/reheader.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate --rename-chrs /tmp/5IvE_zKmMM/rename.map -Ov /tmp/5IvE_zKmMM/annotate.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate --rename-chrs /tmp/5IvE_zKmMM/rename.map -Ob /tmp/5IvE_zKmMM/annotate.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate --rename-chrs /tmp/5IvE_zKmMM/rename.map -Ov /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate --rename-chrs /tmp/5IvE_zKmMM/rename.map -Ob /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids --3N6 /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,-
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert  --vcf-ids -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert  --vcf-ids -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --3N6 -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.3N6.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --3N6 -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.3N6.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --vcf-ids -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --vcf-ids -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --tag PL /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --tag PL
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --tag PL /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --tag PL
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids /tmp/5IvE_zKmMM/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --vcf-ids /tmp/5IvE_zKmMM/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --3N6 /tmp/5IvE_zKmMM/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --3N6 /tmp/5IvE_zKmMM/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --3N6 --vcf-ids /tmp/5IvE_zKmMM/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --3N6 --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --3N6 --vcf-ids /tmp/5IvE_zKmMM/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --3N6 --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -h -,.,. /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -h -,.,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,-,. /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,-,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,-,. --vcf-ids /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,-,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,.,- /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,.,-
.. ok

test_vcf_convert_hls2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -H /builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.legend,/builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hls2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -H /builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.legend,/builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --haplegendsample -,.,. /tmp/5IvE_zKmMM/convert.hap-missing.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.hap-missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --haplegendsample -,.,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample -,. /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample -,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample -,. --vcf-ids /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample .,- /tmp/5IvE_zKmMM/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample .,-
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --vcf-ids --hapsample2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.ids.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --vcf-ids --hapsample2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.ids.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/convert.gvcf.vcf.gz
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/5IvE_zKmMM/convert.gvcf.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/5IvE_zKmMM/convert.gvcf.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa | grep -v ^##bcftools
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --no-version  -c ID,CHROM,POS,AA -s SAMPLE1 -f /builddir/build/BUILD/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.23andme
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -Ou  -c ID,CHROM,POS,AA -s SAMPLE1 -f /builddir/build/BUILD/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.23andme | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --no-version  -c -,CHROM,POS,REF,ALT -f /builddir/build/BUILD/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.tsv
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -Ou  -c -,CHROM,POS,REF,ALT -f /builddir/build/BUILD/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.tsv | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.gvcf-missing.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.gvcf-missing.fa --missing N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.gvcf-missing.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.gvcf-missing.fa --missing N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.2.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.2.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s B  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s B  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s A -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s A -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s B -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s B -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.beyond.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.beyond.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.beyond.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.beyond.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab -c /tmp/5IvE_zKmMM/consensus.1.chain.new >/dev/null; cat /tmp/5IvE_zKmMM/consensus.1.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab -c /tmp/5IvE_zKmMM/consensus.2.chain.new >/dev/null; cat /tmp/5IvE_zKmMM/consensus.2.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -I -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -I -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -I -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab --mask-with X -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab --mask-with lc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -I -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab --mask-with X -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab --mask-with lc  
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -I -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab -c /tmp/5IvE_zKmMM/consensus.3.chain.new >/dev/null; cat /tmp/5IvE_zKmMM/consensus.3.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1  
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1  -c /tmp/5IvE_zKmMM/consensus.4.chain.new >/dev/null; cat /tmp/5IvE_zKmMM/consensus.4.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus2.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus2.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/empty.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/empty.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2 -M "?"  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus3.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2 -M "?"  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2 -M "?" -p xx_  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus3.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2 -M "?" -p xx_  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus4.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus4.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus5.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus5.fa --haplotype LA  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus5.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus5.fa --haplotype LA  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus6.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus6.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus6.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 4  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 4  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 2pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 2pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 4pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 4pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 3  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 3  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 1pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 1pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 3pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 3pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP>15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP>15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP<15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP<15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.9.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.9.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.9.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.9.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.10.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.10.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.10.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.10.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.11.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.11.fa -s smpl  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.11.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.11.fa -s smpl  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.11.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.11.fa -s smpl -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.11.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.11.fa -s smpl -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.13.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.13.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.13.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.13.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.14.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.14.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.14.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.14.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s - --mark-del - --mark-ins uc --mark-snv uc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s - --mark-del - --mark-ins uc --mark-snv uc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s - --mark-del - --mark-ins + --mark-snv :  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s - --mark-del - --mark-ins + --mark-snv :  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.15.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.15.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.16.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.16.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.16.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.16.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.17.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -s - -M N -m /builddir/build/BUILD/bcftools-1.23/test/consensus.17.bed 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.17.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -s - -M N -m /builddir/build/BUILD/bcftools-1.23/test/consensus.17.bed 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.18.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.18.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.18.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.18.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.19.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.19.fa -s -   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.19.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.19.fa -s -   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -s b  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -s b  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -s a  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -s a  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23/test/consensus.20.b.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23/test/consensus.20.b.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23/test/consensus.20.a.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23/test/consensus.20.a.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.21.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.21.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.21.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.21.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 0 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 0 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 1 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 1 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 2 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 2 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 0  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 0  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/5IvE_zKmMM/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 2  
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r 11:10-20 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/iupac.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/iupac.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r 11:10-20 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/iupac.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/iupac.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/5IvE_zKmMM/mpileup.bam.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/5IvE_zKmMM/mpileup.bam.urllist | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/5IvE_zKmMM/mpileup.cram.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/5IvE_zKmMM/mpileup.cram.urllist | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/5IvE_zKmMM/mpileup.bam.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/5IvE_zKmMM/mpileup.bam.urllist | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/5IvE_zKmMM/mpileup.cram.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/5IvE_zKmMM/mpileup.cram.urllist | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP,-AD -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP,-AD -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP,-AD -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP,-AD -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-set PAIRED,PROPER_PAIR,MREVERSE -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-set PAIRED,PROPER_PAIR,MREVERSE -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-set READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-set READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-unset READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-unset READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-unset READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-unset READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr19:69-99 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr19:69-99 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.1.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr6:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr6:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr16:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr16:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.gff3 /builddir/build/BUILD/bcftools-1.23/test/csq.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.chr.gff3 --unify-chr-names -,chr,- /builddir/build/BUILD/bcftools-1.23/test/csq.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.2.gff /builddir/build/BUILD/bcftools-1.23/test/csq.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.2.gff --ncsq 64 /builddir/build/BUILD/bcftools-1.23/test/csq.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa --unify-chr-names -,-,- /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.fa --unify-chr-names -,-,chr /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa --unify-chr-names -,chr,- /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.fa --unify-chr-names -,chr,chr /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.fa --unify-chr-names chr,chr,chr /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.fa --unify-chr-names chr,-,chr /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa --unify-chr-names chr,chr,- /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa --unify-chr-names chr,-,- /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff --unify-chr-names Chromosome,chr,- /builddir/build/BUILD/bcftools-1.23/test/csq.yychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/not-a-stop.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/not-a-stop.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000593942/ENST00000593942.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000593942/ENST00000593942.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000593942/last-codon-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000528237/ENST00000528237.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000528237/ENST00000528237.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000528237/retained-stop-incomplete-cds.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000422159 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000422159.fa -g ENST00000422159.gff multiallelic.vcf  | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000422159.fa -g short.gff multiallelic.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000390520/ENST00000390520.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000390520/ENST00000390520.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000390520/deletion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/EMN908947 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f EMN908947.fa -g ribosomal-slippage.gff ribosomal-slippage.vcf --force | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/EMN908947 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f EMN908947.fa -g simple.gff simple.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000379416 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.del-snp.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-del.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-ins.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-snp.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff single.vcf                 | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000301246/ENST00000301246.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000301246/ENST00000301246.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000301246/15bp-insert.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/valgrind.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000571540/ENST00000571540.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000571540/ENST00000571540.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000571540/nmd.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000285021/ENST00000285021.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000285021/ENST00000285021.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000285021/stop-gained-inframe-indel.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/short-cds-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/short-cds-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000357367/ENST00000357367.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000357367/ENST00000357367.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000357367/stop-retained.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000230048/ENST00000230048.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000230048/ENST00000230048.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000230048/start-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/splice-region.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/splice-region.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame2.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame2.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000368801.2.fa -g ENST00000368801.2.gff alt-gencode.vcf -v 0 -C 0 | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%BCSQ\n' | ../sort-csq -q
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000368801.2.fa -g ENST00000368801.2.gff alt-gencode.vcf -v 0 -C 1 | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%BCSQ\n' | ../sort-csq -q
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2/ENST00000368801.2.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2/ENST00000368801.2.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414/ENST00000518414.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414/ENST00000518414.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414/incorrect-inframe-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000382647/ENST00000382647.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000382647/ENST00000382647.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000382647/synon-splice-region-insert.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.gff /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/starts-with-1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.gff /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/starts-with-1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000000001 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000000001.fa -g ENST00000000001.gff test.vcf -p a -Ot | grep -v ^#
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000000001 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000000001.fa -g ENST00000000001.gff test.vcf -p a | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000400151/ENST00000400151.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000400151/ENST00000400151.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000400151/long-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000580206 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff single.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/long-inside-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/long-inside-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000519442/ENST00000519442.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000519442/ENST00000519442.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000519442/synon-splice-region-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420190/ENST00000420190.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420190/ENST00000420190.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420190/abort-in-csq-push.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000557788/ENST00000557788.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000557788/ENST00000557788.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000557788/long-overlap-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0003/EDUMMY0003.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0003/EDUMMY0003.gff /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0003/long-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENSMUST00000133836 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENSMUST00000133836.fa -g ENSMUST00000133836.gff filter-problem.vcf -i 'FILTER="PASS"' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000436063/ENST00000436063.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000436063/ENST00000436063.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000436063/insert-before-utr.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000375992/ENST00000375992.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000375992/ENST00000375992.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000375992/incorrect-synon-del-not-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249.2/ENST00000318249.2.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249.2/ENST00000318249.2.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249.2/synonymous-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25500' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25496' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25105' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0002/EDUMMY0002.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0002/EDUMMY0002.gff /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0002/boundaries.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000269081/ENST00000269081.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000269081/ENST00000269081.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000269081/stop-gained-not-inframe-insertion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000271583/ENST00000271583.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000271583/ENST00000271583.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000271583/splice-acceptor.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/non-coding-boundary.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/non-coding-boundary.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000256452/ENST00000256452.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000256452/ENST00000256452.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000256452/intron.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENSCAFT00000047742/ENSCAFT00000047742.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENSCAFT00000047742/ENSCAFT00000047742.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENSCAFT00000047742/test.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573035-bt2212/complex-event.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000227471/ENST00000227471.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000227471/ENST00000227471.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000227471/insert-splice-vs-frameshift.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/boundary-insertion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/boundary-insertion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000624631/ENST00000624631.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000624631/ENST00000624631.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000624631/ambiguous.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -b -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 5 -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -lb -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009/ENST00000410009.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009/ENST00000410009.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009/frameshift.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000360372/ENST00000360372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000360372/ENST00000360372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000360372/mnp.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000409523/ENST00000409523.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000409523/ENST00000409523.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000409523/long-overlapping-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/start-lost-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/snps.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/snps.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/insert3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/insert3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000545279/ENST00000545279.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000545279/ENST00000545279.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000545279/splice-region-insert.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/start-stop-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/segfault.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000381157/ENST00000381157.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000381157/ENST00000381157.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000381157/haploid-diploid.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520868/ENST00000520868.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520868/ENST00000520868.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520868/long-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801/ENST00000368801.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801/ENST00000368801.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801/compound-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000448695/ENST00000448695.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000448695/ENST00000448695.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000448695/syn-and-splice-reg.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/end-overlap-tscript.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/end-overlap-tscript.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/boundary-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/boundary-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENSG00000173376/ENSG00000173376.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENSG00000173376/ENSG00000173376.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENSG00000173376/synon.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000413103/ENST00000413103.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000413103/ENST00000413103.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000413103/long-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000000000 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -p a -f ENST00000000000.fa -g ENST00000000000.gff upstream-stop.vcf  | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%SAMPLE\t%GT\t%TBCSQ\n]' | ../sort-csq -q
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000263103-INS/ENST00000263103-INS.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000263103-INS/ENST00000263103-INS.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000263103-INS/insertions.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz -Or -G30 --AF-dflt 0.4| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz -Or -G30 --AF-file /builddir/build/BUILD/bcftools-1.23/test/roh.1.tab.gz| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz -Or -G30 --AF-file /builddir/build/BUILD/bcftools-1.23/test/roh.1.tab.gz --ignore-homref| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245 --ignore-homref| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245 --ignore-homref --include-noalt| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245 --include-noalt| grep -v ^#
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck --keep-refs /tmp/5IvE_zKmMM/gtcheck.gvcf.a.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.gvcf.b.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck --keep-refs /tmp/5IvE_zKmMM/gtcheck.gvcf.b.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.gvcf.a.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck  /tmp/5IvE_zKmMM/gtcheck.gvcf.a.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.gvcf.b.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck  /tmp/5IvE_zKmMM/gtcheck.gvcf.b.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.gvcf.a.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 --no-HWE-prob /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u GT,GT /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u GT,PL /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL,GT /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL,PL /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -p s1,s1 /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 /tmp/5IvE_zKmMM/gtcheck.2.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0  /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -p B,A,C,A,C,B,D,A,D,B,D,C,E,A,E,B,E,C,E,D /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23/test/gtcheck.3.pairs /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 --n-matches 4 /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO  | sort
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:E,D,C /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:E,D,C -u PL /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D -u PL /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D,C /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -p B,C,B,D /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u GT,GT -H /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u GT,PL -H /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL,GT -H /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL,PL -H /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23/test/gtcheck.4.pairs --distinctive-sites 3 /tmp/5IvE_zKmMM/gtcheck.4.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23/test/gtcheck.4.pairs --distinctive-sites 3,1 /tmp/5IvE_zKmMM/gtcheck.4.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -u GT -e 30 /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -u GT -e 300 /tmp/5IvE_zKmMM/gtcheck.1.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -u PL -e 30 /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck  /tmp/5IvE_zKmMM/gtcheck.ntop.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck --n-matches 2 /tmp/5IvE_zKmMM/gtcheck.ntop.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck  /tmp/5IvE_zKmMM/gtcheck.5.vcf.gz -g /tmp/5IvE_zKmMM/gtcheck.5.gts.vcf.gz | grep -v ^# | grep -v Time
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -p A,B,B,C /tmp/5IvE_zKmMM/gtcheck.6.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -t 11:33 -p A,D,A,E,D,E -u GT -e 10 /tmp/5IvE_zKmMM/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vcf2table /tmp/5IvE_zKmMM/merge.4.b.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vcf2table /tmp/5IvE_zKmMM/merge.4.b.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vcf2table /tmp/5IvE_zKmMM/split-vep.2.vcf.gz  -- --hide 'INFO,URL' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vcf2table /tmp/5IvE_zKmMM/split-vep.2.bcf  -- --hide 'INFO,URL' | grep -v ^##bcftools_
.. ok


Number of tests:
    total   .. 2396
    passed  .. 2396
    failed  .. 0

+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: bcftools-1.23-1.el9.ppc64le
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.KSHoAd
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.23
+ DOCDIR=/builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/doc/bcftools
+ export LC_ALL=C
+ LC_ALL=C
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/doc/bcftools
+ cp -pr AUTHORS /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/doc/bcftools
+ cp -pr NEWS /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/doc/bcftools
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.mGxJJy
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.23
+ LICENSEDIR=/builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/licenses/bcftools
+ export LC_ALL=C
+ LC_ALL=C
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/licenses/bcftools
+ cp -pr LICENSE /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le/usr/share/licenses/bcftools
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: bcftools = 1.23-1.el9 bcftools(ppc-64) = 1.23-1.el9
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/perl /usr/bin/python3 libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libgsl.so.25()(64bit) libgslcblas.so.0()(64bit) libhts.so.3()(64bit) libhts.so.3(HTSLIB_1.0)(64bit) libhts.so.3(HTSLIB_1.1)(64bit) libhts.so.3(HTSLIB_1.10)(64bit) libhts.so.3(HTSLIB_1.13)(64bit) libhts.so.3(HTSLIB_1.16)(64bit) libhts.so.3(HTSLIB_1.17)(64bit) libhts.so.3(HTSLIB_1.2.1)(64bit) libhts.so.3(HTSLIB_1.22)(64bit) libhts.so.3(HTSLIB_1.3)(64bit) libhts.so.3(HTSLIB_1.4)(64bit) libhts.so.3(HTSLIB_1.5)(64bit) libhts.so.3(HTSLIB_1.6)(64bit) libhts.so.3(HTSLIB_1.7)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libperl.so.5.32()(64bit) rtld(GNU_HASH)
Conflicts: samtools < 1.0
Processing files: bcftools-debugsource-1.23-1.el9.ppc64le
Provides: bcftools-debugsource = 1.23-1.el9 bcftools-debugsource(ppc-64) = 1.23-1.el9
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: bcftools-debuginfo-1.23-1.el9.ppc64le
Provides: bcftools-debuginfo = 1.23-1.el9 bcftools-debuginfo(ppc-64) = 1.23-1.el9 debuginfo(build-id) = 077e645d232c057da11a752d5c72ff56556aa51f debuginfo(build-id) = 29cd4cb626a806dbe020dbef50a7fa8710bdc990 debuginfo(build-id) = 2a8cce8e287d4ad1c559e9e136aa8c9b5fb65202 debuginfo(build-id) = 302ffdc74a518057108f2387aced2b5ef96e974d debuginfo(build-id) = 31384d779249f2f8fc28be838a1d0768c72ef8ab debuginfo(build-id) = 344cae0ade3ebd23e5f5843d23004a63eb1f8342 debuginfo(build-id) = 39b655027485bfb78dcc4c7ad8ff86623f5905f6 debuginfo(build-id) = 3d8fca1b59b01ecd7e31617d07a016a521befc3e debuginfo(build-id) = 3eb0b6ed9a2d02e0711c2effe6f6b8f0f183d919 debuginfo(build-id) = 45019aebebfcceeea467aa96753315e89559faaf debuginfo(build-id) = 519cc5e5f479266d9e31d68d1933f9ffc23af92c debuginfo(build-id) = 540cce292b4fb3d2d3d4bc162659e5c3d4d80e4e debuginfo(build-id) = 57f3195b9d55e126ca4dace4adf2c895ec1ecff6 debuginfo(build-id) = 5a930267b348c48735e667da8046a6828413b8de debuginfo(build-id) = 5e0e89e843a4dd7f33f6d5353820b572d364ae38 debuginfo(build-id) = 5f56c7deb998440757e72ae312acdd2267fcdf93 debuginfo(build-id) = 625f2c28855699239de1817c9aa874656e7c2fd7 debuginfo(build-id) = 6268406d005eb6f98000f4ab471a971ec312a512 debuginfo(build-id) = 636d7231403b9fb43a574c01866f51c88d1260eb debuginfo(build-id) = 6ec863bea50d8a144bd5e5fc60131d4a894bbd37 debuginfo(build-id) = 740cb769e9fc1f8fb54d324ae5708854ea238dee debuginfo(build-id) = 7950e8af9c82b07c8f2f80e208174b16285ca8d2 debuginfo(build-id) = 8e0e7b6812fed674a4ee5a15c06394948bd6a92d debuginfo(build-id) = 9c524f95fdc01ad125b378d143b8cdedfb1b5fa9 debuginfo(build-id) = a2eb8ed589250a167202669490d37ab6712bf058 debuginfo(build-id) = a327de97689f53b77b47541f5d4366de9332e2ba debuginfo(build-id) = a9617b93cad6ac1f34e6428d6e4c0ace4f4820e1 debuginfo(build-id) = b34dc95178e775cd3ee9450bdd99977025f39800 debuginfo(build-id) = beb31a47e53aa48fd62fa03bb1bbbe66821cc394 debuginfo(build-id) = c251bdf890ce4e72f89d7dba743eb06107b975dd debuginfo(build-id) = c56a5b3539680884c4b3501de76c746cd3e40fa1 debuginfo(build-id) = c62f2e92c19b0dfee2ff5e16434634e8c9c731c3 debuginfo(build-id) = c70fea1db7cc583798b4b3562b9d9add54331015 debuginfo(build-id) = c825b04164ebed3b9daee559d24c177912c8e857 debuginfo(build-id) = cdaab20c91668f94099e23919b4e35e7b45b7d8f debuginfo(build-id) = d1c733634d0baf014e5801f8a74605fe02652332 debuginfo(build-id) = d859bd6e72dd68abe63048553f60ef79adc473fc debuginfo(build-id) = e2976e7e3788a86dbaac01aeea5d984fe0c95049 debuginfo(build-id) = e6d29cabf4d41a058ae99c89f7ded861aef065e3 debuginfo(build-id) = eb8a98604102c8f43f98c81adfc197303fb79e6b debuginfo(build-id) = eea8ae12ba18b968751a47385bf29ea0e2ca4fde debuginfo(build-id) = f3b3506ff97f011008c2e3dea9b1f9b3aad8af09
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: bcftools-debugsource(ppc-64) = 1.23-1.el9
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le
Wrote: /builddir/build/RPMS/bcftools-1.23-1.el9.ppc64le.rpm
Wrote: /builddir/build/RPMS/bcftools-debugsource-1.23-1.el9.ppc64le.rpm
Wrote: /builddir/build/RPMS/bcftools-debuginfo-1.23-1.el9.ppc64le.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.dE8a51
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.23
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/bcftools-1.23-1.el9.ppc64le
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild bcftools-1.23-1.el9.src.rpm
Finish: build phase for bcftools-1.23-1.el9.src.rpm
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/rhel+epel-9-ppc64le-1769502178.609159/root/var/log/dnf.rpm.log
/var/lib/mock/rhel+epel-9-ppc64le-1769502178.609159/root/var/log/dnf.librepo.log
/var/lib/mock/rhel+epel-9-ppc64le-1769502178.609159/root/var/log/dnf.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
INFO: Done(/var/lib/copr-rpmbuild/results/bcftools-1.23-1.el9.src.rpm) Config(child) 3 minutes 13 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": "bcftools",
            "epoch": null,
            "version": "1.23",
            "release": "1.el9",
            "arch": "src"
        },
        {
            "name": "bcftools-debuginfo",
            "epoch": null,
            "version": "1.23",
            "release": "1.el9",
            "arch": "ppc64le"
        },
        {
            "name": "bcftools",
            "epoch": null,
            "version": "1.23",
            "release": "1.el9",
            "arch": "ppc64le"
        },
        {
            "name": "bcftools-debugsource",
            "epoch": null,
            "version": "1.23",
            "release": "1.el9",
            "arch": "ppc64le"
        }
    ]
}
RPMResults finished