Warning: Permanently added '3.95.17.36' (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-fedora-rawhide-x86_64 --chroot fedora-rawhide-x86_64


Version: 1.6
PID: 20860
Logging PID: 20862
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': False,
 'build_id': 10066103,
 'buildroot_pkgs': [],
 'chroot': 'fedora-rawhide-x86_64',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': 'ef1e765a1035b0f2dd26cbdff692764fa901e898',
 '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/fedora-rawhide-x86_64/',
            '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': [],
 'task_id': '10066103-fedora-rawhide-x86_64',
 '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-pz_g1mvk/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-pz_g1mvk/bcftools', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-pz_g1mvk/bcftools'...

Running: git checkout ef1e765a1035b0f2dd26cbdff692764fa901e898 --

cmd: ['git', 'checkout', 'ef1e765a1035b0f2dd26cbdff692764fa901e898', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-pz_g1mvk/bcftools
rc: 0
stdout: 
stderr: Note: switching to 'ef1e765a1035b0f2dd26cbdff692764fa901e898'.

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 ef1e765 automatic import of bcftools

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-pz_g1mvk/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   271M      0 --:--:-- --:--:-- --:--:--  277M
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-pz_g1mvk/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-pz_g1mvk/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1769501980.264018 -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-pz_g1mvk/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-pz_g1mvk/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1769501980.264018 -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-pz_g1mvk/bcftools/bcftools.spec)  Config(fedora-rawhide-x86_64)
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/fedora-rawhide-x86_64-bootstrap-1769501980.264018/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
INFO: Guessed host environment type: unknown
INFO: Using container image: registry.fedoraproject.org/fedora:rawhide
INFO: Pulling image: registry.fedoraproject.org/fedora:rawhide
INFO: Tagging container image as mock-bootstrap-32784fd1-fbf7-4e83-826d-70fcbefb314f
INFO: Checking that b78a5ab595ef3bb460c58c0d4addb3548a499318fd5430f2bd41793ef7781499 image matches host's architecture
INFO: Copy content of container b78a5ab595ef3bb460c58c0d4addb3548a499318fd5430f2bd41793ef7781499 to /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1769501980.264018/root
INFO: mounting b78a5ab595ef3bb460c58c0d4addb3548a499318fd5430f2bd41793ef7781499 with podman image mount
INFO: image b78a5ab595ef3bb460c58c0d4addb3548a499318fd5430f2bd41793ef7781499 as /var/lib/containers/storage/overlay/eee5964c32f6db556d80a0c2d687049f5f34fc087d00ea1a2406a21ea4ce92a5/merged
INFO: umounting image b78a5ab595ef3bb460c58c0d4addb3548a499318fd5430f2bd41793ef7781499 (/var/lib/containers/storage/overlay/eee5964c32f6db556d80a0c2d687049f5f34fc087d00ea1a2406a21ea4ce92a5/merged) with podman image umount
INFO: Removing image mock-bootstrap-32784fd1-fbf7-4e83-826d-70fcbefb314f
INFO: Package manager dnf5 detected and used (fallback)
INFO: Not updating bootstrap chroot, bootstrap_image_ready=True
Start(bootstrap): creating root cache
Finish(bootstrap): creating root cache
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-1769501980.264018/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Package manager dnf5 detected and used (direct choice)
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-6.0.1-2.fc44.x86_64
  rpm-sequoia-1.10.0-2.fc44.x86_64
  dnf5-5.3.0.0-7.fc44.x86_64
  dnf5-plugins-5.3.0.0-7.fc44.x86_64
Start: installing minimal buildroot with dnf5
Updating and loading repositories:
 Copr repository                        100% |  11.8 KiB/s |   5.0 KiB |  00m00s
 fedora                                 100% |  24.6 MiB/s |  22.0 MiB |  00m01s
>>> Downloading successful, but checksum doesn't match. Calculated: 6a1ebfd74b64d3c19669fd2cc961f2f3805c17bc613aae16afc72106f73b631f82570087b0ecebda3f10f4416e151ae8617b905e9fed41d6cd370d1b07fa93ae(sha512) 6a1ebfd74b64d3c19669fd2cc961f2f3805c17bc613aae16afc72106f73b631f82570087b0ecebda3f10f4416e151ae8617b905e9fed41d6cd370d1b07fa93ae(sha512) 6a1ebfd74b64d3c19669fd2cc961f2f3805c17bc613aae16afc72106f73b631f82570087b0ecebda3f10f4416e151ae8617b905e9fed41d6cd370d1b07fa93ae(sha512)  Expected: cf4f6f0708649b70abb5c1998349f597d71e4a7b1eee1f7d1c8b5f50d18acce7f72d142ec4bff6864bfba741f9c84e4f61a59132a6fac075813b00330a5cbaa5(sha512) 16f6bef710c8c235bc4f22de8af5cc8e33fe8e788ca6d8061dbe1a89324ecca10389f4e917cc179b941522ac38e77217188fc530a5194b4f09c5249c93a40f35(sha512) cb796b0e9894777d557107c03175db4a486ad36b3f77136fb26ee477859f5efc14db25472f6580d183d09581828de03283459d87023288d8a90399fdc7220a70(sha512)  - https://d2lzkl7pfhq30w.cloudfront.net/pub/fedora/linux/development/rawhide/Everything/x86_64/os/repodata/repomd.xml
Repositories loaded.
Package                            Arch   Version                      Repository      Size
Installing group/module packages:
 bash                              x86_64 0:5.3.9-3.fc44               fedora       8.5 MiB
 bzip2                             x86_64 0:1.0.8-23.fc44              fedora      95.0 KiB
 coreutils                         x86_64 0:9.9-4.fc44                 fedora       5.4 MiB
 cpio                              x86_64 0:2.15-6.fc43                fedora       1.1 MiB
 diffutils                         x86_64 0:3.12-5.fc44                fedora       1.6 MiB
 fedora-release-common             noarch 0:44-0.10                    fedora      20.6 KiB
 findutils                         x86_64 1:4.10.0-7.fc44              fedora       1.9 MiB
 gawk                              x86_64 0:5.3.2-3.fc44               fedora       1.8 MiB
 glibc-minimal-langpack            x86_64 0:2.42.9000-25.fc44          fedora       0.0   B
 grep                              x86_64 0:3.12-3.fc44                fedora       1.0 MiB
 gzip                              x86_64 0:1.14-2.fc44                fedora     401.6 KiB
 info                              x86_64 0:7.2-7.fc44                 fedora     357.9 KiB
 patch                             x86_64 0:2.8-4.fc44                 fedora     226.6 KiB
 redhat-rpm-config                 noarch 0:343-19.fc44                fedora     183.6 KiB
 rpm-build                         x86_64 0:6.0.1-2.fc44               fedora     294.6 KiB
 sed                               x86_64 0:4.9-7.fc44                 fedora     857.2 KiB
 shadow-utils                      x86_64 2:4.18.0-7.fc44              fedora       3.9 MiB
 tar                               x86_64 2:1.35-8.fc44                fedora       3.0 MiB
 unzip                             x86_64 0:6.0-69.fc44                fedora     445.8 KiB
 util-linux                        x86_64 0:2.41.3-12.fc44             fedora       3.5 MiB
 which                             x86_64 0:2.23-4.fc44                fedora      83.4 KiB
 xz                                x86_64 1:5.8.2-2.fc44               fedora       1.3 MiB
Installing dependencies:
 R-srpm-macros                     noarch 0:1.3.4-3.fc44               fedora       3.4 KiB
 add-determinism                   x86_64 0:0.7.2-3.fc44               fedora       2.3 MiB
 alternatives                      x86_64 0:1.33-5.fc44                fedora      62.1 KiB
 ansible-srpm-macros               noarch 0:1-20.1.fc44                fedora      35.7 KiB
 audit-libs                        x86_64 0:4.1.2-4.fc44               fedora     390.5 KiB
 binutils                          x86_64 0:2.45.50-19.fc44            fedora      27.4 MiB
 build-reproducibility-srpm-macros noarch 0:0.7.2-3.fc44               fedora       1.2 KiB
 bzip2-libs                        x86_64 0:1.0.8-23.fc44              fedora      80.5 KiB
 ca-certificates                   noarch 0:2025.2.80_v9.0.304-5.fc44  fedora       2.7 MiB
 cmake-srpm-macros                 noarch 0:3.31.10-5.fc44             fedora     524.0   B
 coreutils-common                  x86_64 0:9.9-4.fc44                 fedora      11.2 MiB
 crypto-policies                   noarch 0:20251128-3.git19878fe.fc44 fedora     132.6 KiB
 curl                              x86_64 0:8.18.0-3.fc44              fedora     480.0 KiB
 cyrus-sasl-lib                    x86_64 0:2.1.28-35.fc44             fedora       2.3 MiB
 debugedit                         x86_64 0:5.2-6.fc44                 fedora     218.3 KiB
 dwz                               x86_64 0:0.16-3.fc44                fedora     290.9 KiB
 ed                                x86_64 0:1.22.4-2.fc44              fedora     149.1 KiB
 efi-srpm-macros                   noarch 0:6-6.fc44                   fedora      40.2 KiB
 elfutils                          x86_64 0:0.194-3.fc44               fedora       2.9 MiB
 elfutils-debuginfod-client        x86_64 0:0.194-3.fc44               fedora      83.7 KiB
 elfutils-default-yama-scope       noarch 0:0.194-3.fc44               fedora       1.8 KiB
 elfutils-libelf                   x86_64 0:0.194-3.fc44               fedora       1.1 MiB
 elfutils-libs                     x86_64 0:0.194-3.fc44               fedora     715.3 KiB
 fedora-gpg-keys                   noarch 0:44-0.1                     fedora     131.2 KiB
 fedora-release                    noarch 0:44-0.10                    fedora       0.0   B
 fedora-release-identity-basic     noarch 0:44-0.10                    fedora     664.0   B
 fedora-repos                      noarch 0:44-0.1                     fedora       4.9 KiB
 fedora-repos-rawhide              noarch 0:44-0.1                     fedora       2.2 KiB
 file                              x86_64 0:5.46-9.fc44                fedora     100.1 KiB
 file-libs                         x86_64 0:5.46-9.fc44                fedora      11.9 MiB
 filesystem                        x86_64 0:3.18-52.fc44               fedora     112.0   B
 filesystem-srpm-macros            noarch 0:3.18-52.fc44               fedora      38.2 KiB
 fonts-srpm-macros                 noarch 1:5.0.0-2.fc44               fedora      55.8 KiB
 forge-srpm-macros                 noarch 0:0.4.0-4.fc44               fedora      38.9 KiB
 fpc-srpm-macros                   noarch 0:1.3-16.fc44                fedora     144.0   B
 gap-srpm-macros                   noarch 0:2-2.fc44                   fedora       2.1 KiB
 gdb-minimal                       x86_64 0:17.1-2.fc44                fedora      14.3 MiB
 gdbm-libs                         x86_64 1:1.23-11.fc44               fedora     129.6 KiB
 ghc-srpm-macros                   noarch 0:1.9.2-4.fc44               fedora     779.0   B
 glibc                             x86_64 0:2.42.9000-25.fc44          fedora       6.9 MiB
 glibc-common                      x86_64 0:2.42.9000-25.fc44          fedora       1.0 MiB
 glibc-gconv-extra                 x86_64 0:2.42.9000-25.fc44          fedora       7.4 MiB
 gmp                               x86_64 1:6.3.0-5.fc44               fedora     815.2 KiB
 gnat-srpm-macros                  noarch 0:7-2.fc44                   fedora       1.0 KiB
 gnulib-l10n                       noarch 0:20241231-2.fc44            fedora     655.0 KiB
 gnupg2                            x86_64 0:2.4.9-4.fc44               fedora       6.5 MiB
 gnupg2-dirmngr                    x86_64 0:2.4.9-4.fc44               fedora     634.0 KiB
 gnupg2-gpg-agent                  x86_64 0:2.4.9-4.fc44               fedora     682.5 KiB
 gnupg2-gpgconf                    x86_64 0:2.4.9-4.fc44               fedora     249.7 KiB
 gnupg2-keyboxd                    x86_64 0:2.4.9-4.fc44               fedora     201.2 KiB
 gnupg2-verify                     x86_64 0:2.4.9-4.fc44               fedora     360.3 KiB
 gnutls                            x86_64 0:3.8.11-10.fc44             fedora       3.7 MiB
 go-srpm-macros                    noarch 0:3.8.0-2.fc44               fedora      61.9 KiB
 gpgverify                         noarch 0:2.2-4.fc44                 fedora       8.7 KiB
 ima-evm-utils-libs                x86_64 0:1.6.2-8.fc44               fedora      60.6 KiB
 jansson                           x86_64 0:2.14-4.fc44                fedora      88.9 KiB
 java-srpm-macros                  noarch 0:1-8.fc44                   fedora     870.0   B
 json-c                            x86_64 0:0.18-8.fc44                fedora      82.6 KiB
 kernel-srpm-macros                noarch 0:1.0-28.fc44                fedora       1.9 KiB
 keyutils-libs                     x86_64 0:1.6.3-7.fc44               fedora      54.2 KiB
 krb5-libs                         x86_64 0:1.21.3-12.fc44             fedora       2.4 MiB
 libacl                            x86_64 0:2.3.2-6.fc44               fedora      35.8 KiB
 libarchive                        x86_64 0:3.8.4-2.fc44               fedora     991.2 KiB
 libassuan                         x86_64 0:2.5.7-5.fc44               fedora     163.8 KiB
 libattr                           x86_64 0:2.5.2-8.fc44               fedora      24.3 KiB
 libblkid                          x86_64 0:2.41.3-12.fc44             fedora     274.3 KiB
 libbrotli                         x86_64 0:1.2.0-3.fc44               fedora     865.0 KiB
 libcap                            x86_64 0:2.77-2.fc44                fedora     212.1 KiB
 libcap-ng                         x86_64 0:0.9-5.fc44                 fedora      68.7 KiB
 libcom_err                        x86_64 0:1.47.3-4.fc44              fedora      63.0 KiB
 libcurl                           x86_64 0:8.18.0-3.fc44              fedora       1.0 MiB
 libeconf                          x86_64 0:0.7.9-3.fc44               fedora      64.8 KiB
 libevent                          x86_64 0:2.1.12-17.fc44             fedora     978.7 KiB
 libfdisk                          x86_64 0:2.41.3-12.fc44             fedora     388.3 KiB
 libffi                            x86_64 0:3.5.2-2.fc44               fedora      87.7 KiB
 libfsverity                       x86_64 0:1.6-4.fc44                 fedora      28.4 KiB
 libgcc                            x86_64 0:16.0.1-0.3.fc44.1          fedora     270.6 KiB
 libgcrypt                         x86_64 0:1.11.2-1.fc44              fedora       1.6 MiB
 libgomp                           x86_64 0:16.0.1-0.3.fc44.1          fedora     571.5 KiB
 libgpg-error                      x86_64 0:1.58-2.fc44                fedora     941.6 KiB
 libidn2                           x86_64 0:2.3.8-3.fc44               fedora     556.4 KiB
 libksba                           x86_64 0:1.6.7-5.fc44               fedora     414.4 KiB
 liblastlog2                       x86_64 0:2.41.3-12.fc44             fedora      37.6 KiB
 libmount                          x86_64 0:2.41.3-12.fc44             fedora     388.6 KiB
 libnghttp2                        x86_64 0:1.68.0-3.fc44              fedora     166.1 KiB
 libnghttp3                        x86_64 0:1.15.0-1.fc44              fedora     159.2 KiB
 libpkgconf                        x86_64 0:2.3.0-4.fc44               fedora      78.0 KiB
 libpsl                            x86_64 0:0.21.5-7.fc44              fedora      76.3 KiB
 libselinux                        x86_64 0:3.9-7.fc44                 fedora     201.0 KiB
 libselinux-utils                  x86_64 0:3.9-7.fc44                 fedora     305.7 KiB
 libsemanage                       x86_64 0:3.9-5.fc44                 fedora     312.3 KiB
 libsepol                          x86_64 0:3.9-3.fc44                 fedora     861.8 KiB
 libsmartcols                      x86_64 0:2.41.3-12.fc44             fedora     188.3 KiB
 libssh                            x86_64 0:0.11.3-1.fc44              fedora     567.1 KiB
 libssh-config                     noarch 0:0.11.3-1.fc44              fedora     277.0   B
 libstdc++                         x86_64 0:16.0.1-0.3.fc44.1          fedora       2.9 MiB
 libtasn1                          x86_64 0:4.20.0-3.fc44              fedora     180.2 KiB
 libtool-ltdl                      x86_64 0:2.5.4-10.fc44              fedora      70.0 KiB
 libunistring                      x86_64 0:1.1-11.fc44                fedora       1.7 MiB
 libusb1                           x86_64 0:1.0.29-5.fc44              fedora     175.2 KiB
 libuuid                           x86_64 0:2.41.3-12.fc44             fedora      37.2 KiB
 libverto                          x86_64 0:0.3.2-12.fc44              fedora      25.3 KiB
 libxcrypt                         x86_64 0:4.5.2-3.fc44               fedora     293.2 KiB
 libxml2                           x86_64 0:2.12.10-6.fc44             fedora       1.8 MiB
 libzstd                           x86_64 0:1.5.7-5.fc44               fedora     956.1 KiB
 linkdupes                         x86_64 0:0.7.2-3.fc44               fedora     826.6 KiB
 lua-libs                          x86_64 0:5.4.8-5.fc44               fedora     281.7 KiB
 lua-srpm-macros                   noarch 0:1-17.fc44                  fedora       1.3 KiB
 lz4-libs                          x86_64 0:1.10.0-4.fc44              fedora     157.3 KiB
 mpfr                              x86_64 0:4.2.2-3.fc44               fedora     849.1 KiB
 ncurses-base                      noarch 0:6.5-9.20250614.fc44        fedora     328.1 KiB
 ncurses-libs                      x86_64 0:6.5-9.20250614.fc44        fedora     965.0 KiB
 nettle                            x86_64 0:3.10.1-3.fc44              fedora     794.3 KiB
 ngtcp2                            x86_64 0:1.19.0-2.fc44              fedora     330.2 KiB
 ngtcp2-crypto-ossl                x86_64 0:1.19.0-2.fc44              fedora      51.6 KiB
 npth                              x86_64 0:1.8-4.fc44                 fedora      49.5 KiB
 ocaml-srpm-macros                 noarch 0:11-3.fc44                  fedora       1.9 KiB
 openblas-srpm-macros              noarch 0:2-21.fc44                  fedora     112.0   B
 openldap                          x86_64 0:2.6.10-7.fc44              fedora     667.5 KiB
 openssl-libs                      x86_64 1:3.5.4-2.fc44               fedora       9.2 MiB
 p11-kit                           x86_64 0:0.25.8-2.fc44              fedora       2.3 MiB
 p11-kit-trust                     x86_64 0:0.25.8-2.fc44              fedora     458.3 KiB
 package-notes-srpm-macros         noarch 0:0.5-15.fc44                fedora       1.6 KiB
 pam-libs                          x86_64 0:1.7.2-1.fc44               fedora     130.5 KiB
 pcre2                             x86_64 0:10.47-1.fc44.1             fedora     718.6 KiB
 pcre2-syntax                      noarch 0:10.47-1.fc44.1             fedora     281.9 KiB
 perl-srpm-macros                  noarch 0:1-61.fc44                  fedora     861.0   B
 pkgconf                           x86_64 0:2.3.0-4.fc44               fedora      88.3 KiB
 pkgconf-m4                        noarch 0:2.3.0-4.fc44               fedora      14.4 KiB
 pkgconf-pkg-config                x86_64 0:2.3.0-4.fc44               fedora     989.0   B
 policycoreutils                   x86_64 0:3.9-8.fc44                 fedora     883.8 KiB
 popt                              x86_64 0:1.19-10.fc44               fedora     132.6 KiB
 publicsuffix-list-dafsa           noarch 0:20260116-1.fc44            fedora      70.4 KiB
 pyproject-srpm-macros             noarch 0:1.18.6-2.fc44              fedora       1.9 KiB
 python-srpm-macros                noarch 0:3.14-10.fc44               fedora      51.6 KiB
 qt5-srpm-macros                   noarch 0:5.15.18-2.fc44             fedora     500.0   B
 qt6-srpm-macros                   noarch 0:6.10.1-2.fc44              fedora     464.0   B
 readline                          x86_64 0:8.3-4.fc44                 fedora     519.5 KiB
 rpm                               x86_64 0:6.0.1-2.fc44               fedora       3.1 MiB
 rpm-build-libs                    x86_64 0:6.0.1-2.fc44               fedora     276.3 KiB
 rpm-libs                          x86_64 0:6.0.1-2.fc44               fedora     961.2 KiB
 rpm-plugin-selinux                x86_64 0:6.0.1-2.fc44               fedora      11.9 KiB
 rpm-sequoia                       x86_64 0:1.10.0-2.fc44              fedora       2.5 MiB
 rpm-sign-libs                     x86_64 0:6.0.1-2.fc44               fedora      39.6 KiB
 rust-srpm-macros                  noarch 0:28.4-3.fc44                fedora       5.5 KiB
 selinux-policy                    noarch 0:42.22-1.fc44               fedora      32.0 KiB
 selinux-policy-targeted           noarch 0:42.22-1.fc44               fedora      18.5 MiB
 setup                             noarch 0:2.15.0-28.fc44             fedora     724.9 KiB
 sqlite-libs                       x86_64 0:3.51.2-1.fc44              fedora       1.6 MiB
 systemd-libs                      x86_64 0:259-9.fc44                 fedora       2.4 MiB
 systemd-standalone-sysusers       x86_64 0:259-9.fc44                 fedora     301.6 KiB
 tpm2-tss                          x86_64 0:4.1.3-9.fc44               fedora       1.6 MiB
 tree-sitter-srpm-macros           noarch 0:0.4.2-2.fc44               fedora       8.3 KiB
 util-linux-core                   x86_64 0:2.41.3-12.fc44             fedora       1.5 MiB
 xxhash-libs                       x86_64 0:0.8.3-4.fc44               fedora      94.0 KiB
 xz-libs                           x86_64 1:5.8.2-2.fc44               fedora     217.7 KiB
 zig-srpm-macros                   noarch 0:1-8.fc44                   fedora       1.3 KiB
 zip                               x86_64 0:3.0-45.fc44                fedora     698.0 KiB
 zlib-ng-compat                    x86_64 0:2.3.2-3.fc44               fedora     169.6 KiB
 zstd                              x86_64 0:1.5.7-5.fc44               fedora     502.4 KiB
Installing groups:
 Buildsystem building group                                                                

Transaction Summary:
 Installing:       182 packages

Total size of inbound packages is 68 MiB. Need to download 68 MiB.
After this operation, 223 MiB extra will be used (install 223 MiB, remove 0 B).
[  1/182] bzip2-0:1.0.8-23.fc44.x86_64  100% |   4.2 MiB/s |  52.1 KiB |  00m00s
[  2/182] coreutils-0:9.9-4.fc44.x86_64 100% |  72.6 MiB/s |   1.2 MiB |  00m00s
[  3/182] cpio-0:2.15-6.fc43.x86_64     100% |  31.8 MiB/s | 293.1 KiB |  00m00s
[  4/182] bash-0:5.3.9-3.fc44.x86_64    100% |  78.9 MiB/s |   1.9 MiB |  00m00s
[  5/182] diffutils-0:3.12-5.fc44.x86_6 100% |  48.3 MiB/s | 395.3 KiB |  00m00s
[  6/182] fedora-release-common-0:44-0. 100% |   8.0 MiB/s |  24.7 KiB |  00m00s
[  7/182] findutils-1:4.10.0-7.fc44.x86 100% | 179.8 MiB/s | 552.5 KiB |  00m00s
[  8/182] glibc-minimal-langpack-0:2.42 100% |  25.0 MiB/s |  76.9 KiB |  00m00s
[  9/182] grep-0:3.12-3.fc44.x86_64     100% |  73.6 MiB/s | 301.6 KiB |  00m00s
[ 10/182] gzip-0:1.14-2.fc44.x86_64     100% |  43.7 MiB/s | 179.1 KiB |  00m00s
[ 11/182] info-0:7.2-7.fc44.x86_64      100% |  59.6 MiB/s | 182.9 KiB |  00m00s
[ 12/182] patch-0:2.8-4.fc44.x86_64     100% |  37.5 MiB/s | 115.2 KiB |  00m00s
[ 13/182] redhat-rpm-config-0:343-19.fc 100% |  38.8 MiB/s |  79.4 KiB |  00m00s
[ 14/182] rpm-build-0:6.0.1-2.fc44.x86_ 100% |  68.3 MiB/s | 139.9 KiB |  00m00s
[ 15/182] sed-0:4.9-7.fc44.x86_64       100% | 103.9 MiB/s | 319.2 KiB |  00m00s
[ 16/182] shadow-utils-2:4.18.0-7.fc44. 100% | 213.4 MiB/s |   1.3 MiB |  00m00s
[ 17/182] tar-2:1.35-8.fc44.x86_64      100% | 121.1 MiB/s | 868.2 KiB |  00m00s
[ 18/182] unzip-0:6.0-69.fc44.x86_64    100% |  32.5 MiB/s | 199.6 KiB |  00m00s
[ 19/182] which-0:2.23-4.fc44.x86_64    100% |  20.6 MiB/s |  42.2 KiB |  00m00s
[ 20/182] xz-1:5.8.2-2.fc44.x86_64      100% | 197.7 MiB/s | 607.2 KiB |  00m00s
[ 21/182] gawk-0:5.3.2-3.fc44.x86_64    100% | 162.2 MiB/s |   1.1 MiB |  00m00s
[ 22/182] util-linux-0:2.41.3-12.fc44.x 100% | 120.4 MiB/s |   1.2 MiB |  00m00s
[ 23/182] filesystem-0:3.18-52.fc44.x86 100% | 133.4 MiB/s |   1.3 MiB |  00m00s
[ 24/182] glibc-0:2.42.9000-25.fc44.x86 100% | 182.1 MiB/s |   2.4 MiB |  00m00s
[ 25/182] ncurses-libs-0:6.5-9.20250614 100% |  30.5 MiB/s | 343.1 KiB |  00m00s
[ 26/182] bzip2-libs-0:1.0.8-23.fc44.x8 100% |   5.3 MiB/s |  43.8 KiB |  00m00s
[ 27/182] gmp-1:6.3.0-5.fc44.x86_64     100% |  39.4 MiB/s | 322.5 KiB |  00m00s
[ 28/182] coreutils-common-0:9.9-4.fc44 100% | 175.3 MiB/s |   2.1 MiB |  00m00s
[ 29/182] libacl-0:2.3.2-6.fc44.x86_64  100% |   2.2 MiB/s |  24.8 KiB |  00m00s
[ 30/182] libattr-0:2.5.2-8.fc44.x86_64 100% |   5.8 MiB/s |  17.9 KiB |  00m00s
[ 31/182] libcap-0:2.77-2.fc44.x86_64   100% |  28.8 MiB/s |  88.5 KiB |  00m00s
[ 32/182] libselinux-0:3.9-7.fc44.x86_6 100% |  33.1 MiB/s | 101.6 KiB |  00m00s
[ 33/182] openssl-libs-1:3.5.4-2.fc44.x 100% | 274.2 MiB/s |   2.7 MiB |  00m00s
[ 34/182] systemd-libs-0:259-9.fc44.x86 100% |  93.9 MiB/s | 865.2 KiB |  00m00s
[ 35/182] fedora-repos-0:44-0.1.noarch  100% |   1.0 MiB/s |   9.1 KiB |  00m00s
[ 36/182] glibc-common-0:2.42.9000-25.f 100% | 120.1 MiB/s | 368.9 KiB |  00m00s
[ 37/182] pcre2-0:10.47-1.fc44.1.x86_64 100% |  67.8 MiB/s | 277.7 KiB |  00m00s
[ 38/182] ed-0:1.22.4-2.fc44.x86_64     100% |  16.7 MiB/s |  85.6 KiB |  00m00s
[ 39/182] R-srpm-macros-0:1.3.4-3.fc44. 100% |   2.6 MiB/s |  10.8 KiB |  00m00s
[ 40/182] ansible-srpm-macros-0:1-20.1. 100% |   9.8 MiB/s |  20.1 KiB |  00m00s
[ 41/182] build-reproducibility-srpm-ma 100% |  12.7 MiB/s |  13.0 KiB |  00m00s
[ 42/182] cmake-srpm-macros-0:3.31.10-5 100% |  10.4 MiB/s |  10.6 KiB |  00m00s
[ 43/182] dwz-0:0.16-3.fc44.x86_64      100% | 135.6 MiB/s | 138.9 KiB |  00m00s
[ 44/182] efi-srpm-macros-0:6-6.fc44.no 100% |  22.0 MiB/s |  22.6 KiB |  00m00s
[ 45/182] file-0:5.46-9.fc44.x86_64     100% |  47.9 MiB/s |  49.0 KiB |  00m00s
[ 46/182] filesystem-srpm-macros-0:3.18 100% |  26.0 MiB/s |  26.6 KiB |  00m00s
[ 47/182] fonts-srpm-macros-1:5.0.0-2.f 100% |  13.4 MiB/s |  27.4 KiB |  00m00s
[ 48/182] forge-srpm-macros-0:0.4.0-4.f 100% |   9.8 MiB/s |  20.0 KiB |  00m00s
[ 49/182] fpc-srpm-macros-0:1.3-16.fc44 100% |   3.9 MiB/s |   7.9 KiB |  00m00s
[ 50/182] gap-srpm-macros-0:2-2.fc44.no 100% |   8.9 MiB/s |   9.1 KiB |  00m00s
[ 51/182] ghc-srpm-macros-0:1.9.2-4.fc4 100% |   4.3 MiB/s |   8.9 KiB |  00m00s
[ 52/182] gnat-srpm-macros-0:7-2.fc44.n 100% |   4.3 MiB/s |   8.7 KiB |  00m00s
[ 53/182] go-srpm-macros-0:3.8.0-2.fc44 100% |   9.2 MiB/s |  28.2 KiB |  00m00s
[ 54/182] java-srpm-macros-0:1-8.fc44.n 100% |   4.0 MiB/s |   8.1 KiB |  00m00s
[ 55/182] kernel-srpm-macros-0:1.0-28.f 100% |   4.4 MiB/s |   9.0 KiB |  00m00s
[ 56/182] lua-srpm-macros-0:1-17.fc44.n 100% |   8.7 MiB/s |   8.9 KiB |  00m00s
[ 57/182] ocaml-srpm-macros-0:11-3.fc44 100% |   4.5 MiB/s |   9.3 KiB |  00m00s
[ 58/182] openblas-srpm-macros-0:2-21.f 100% |   3.8 MiB/s |   7.8 KiB |  00m00s
[ 59/182] package-notes-srpm-macros-0:0 100% |   4.5 MiB/s |   9.2 KiB |  00m00s
[ 60/182] perl-srpm-macros-0:1-61.fc44. 100% |   2.7 MiB/s |   8.4 KiB |  00m00s
[ 61/182] pyproject-srpm-macros-0:1.18. 100% |   4.4 MiB/s |  13.5 KiB |  00m00s
[ 62/182] python-srpm-macros-0:3.14-10. 100% |   7.8 MiB/s |  24.0 KiB |  00m00s
[ 63/182] qt5-srpm-macros-0:5.15.18-2.f 100% |   2.8 MiB/s |   8.7 KiB |  00m00s
[ 64/182] qt6-srpm-macros-0:6.10.1-2.fc 100% |   3.0 MiB/s |   9.2 KiB |  00m00s
[ 65/182] rpm-0:6.0.1-2.fc44.x86_64     100% | 141.2 MiB/s | 578.3 KiB |  00m00s
[ 66/182] rust-srpm-macros-0:28.4-3.fc4 100% |   5.4 MiB/s |  11.1 KiB |  00m00s
[ 67/182] tree-sitter-srpm-macros-0:0.4 100% |   4.4 MiB/s |  13.5 KiB |  00m00s
[ 68/182] zig-srpm-macros-0:1-8.fc44.no 100% |   2.9 MiB/s |   8.8 KiB |  00m00s
[ 69/182] zip-0:3.0-45.fc44.x86_64      100% |  86.1 MiB/s | 264.4 KiB |  00m00s
[ 70/182] debugedit-0:5.2-6.fc44.x86_64 100% |  21.2 MiB/s |  86.7 KiB |  00m00s
[ 71/182] elfutils-0:0.194-3.fc44.x86_6 100% | 190.1 MiB/s | 583.9 KiB |  00m00s
[ 72/182] elfutils-libelf-0:0.194-3.fc4 100% |  66.8 MiB/s | 205.1 KiB |  00m00s
[ 73/182] libarchive-0:3.8.4-2.fc44.x86 100% | 143.7 MiB/s | 441.4 KiB |  00m00s
[ 74/182] libgcc-0:16.0.1-0.3.fc44.1.x8 100% |  56.3 MiB/s | 115.4 KiB |  00m00s
[ 75/182] libstdc++-0:16.0.1-0.3.fc44.1 100% | 229.0 MiB/s | 937.9 KiB |  00m00s
[ 76/182] popt-0:1.19-10.fc44.x86_64    100% |  21.8 MiB/s |  66.9 KiB |  00m00s
[ 77/182] readline-0:8.3-4.fc44.x86_64  100% |  74.8 MiB/s | 229.8 KiB |  00m00s
[ 78/182] rpm-build-libs-0:6.0.1-2.fc44 100% |  64.5 MiB/s | 132.2 KiB |  00m00s
[ 79/182] rpm-libs-0:6.0.1-2.fc44.x86_6 100% | 135.2 MiB/s | 415.5 KiB |  00m00s
[ 80/182] zstd-0:1.5.7-5.fc44.x86_64    100% |  62.7 MiB/s | 192.5 KiB |  00m00s
[ 81/182] audit-libs-0:4.1.2-4.fc44.x86 100% |  69.0 MiB/s | 141.3 KiB |  00m00s
[ 82/182] libeconf-0:0.7.9-3.fc44.x86_6 100% |  35.4 MiB/s |  36.2 KiB |  00m00s
[ 83/182] libsemanage-0:3.9-5.fc44.x86_ 100% |  61.8 MiB/s | 126.6 KiB |  00m00s
[ 84/182] libxcrypt-0:4.5.2-3.fc44.x86_ 100% |  64.1 MiB/s | 131.2 KiB |  00m00s
[ 85/182] pam-libs-0:1.7.2-1.fc44.x86_6 100% |  28.8 MiB/s |  59.1 KiB |  00m00s
[ 86/182] setup-0:2.15.0-28.fc44.noarch 100% | 153.5 MiB/s | 157.2 KiB |  00m00s
[ 87/182] xz-libs-1:5.8.2-2.fc44.x86_64 100% |  57.0 MiB/s | 116.8 KiB |  00m00s
[ 88/182] mpfr-0:4.2.2-3.fc44.x86_64    100% | 174.7 MiB/s | 357.8 KiB |  00m00s
[ 89/182] libblkid-0:2.41.3-12.fc44.x86 100% |  63.2 MiB/s | 129.4 KiB |  00m00s
[ 90/182] libcap-ng-0:0.9-5.fc44.x86_64 100% |  31.9 MiB/s |  32.7 KiB |  00m00s
[ 91/182] libfdisk-0:2.41.3-12.fc44.x86 100% |  82.1 MiB/s | 168.1 KiB |  00m00s
[ 92/182] liblastlog2-0:2.41.3-12.fc44. 100% |  11.5 MiB/s |  23.5 KiB |  00m00s
[ 93/182] libmount-0:2.41.3-12.fc44.x86 100% |  55.7 MiB/s | 171.0 KiB |  00m00s
[ 94/182] libsmartcols-0:2.41.3-12.fc44 100% |  42.4 MiB/s |  86.9 KiB |  00m00s
[ 95/182] libuuid-0:2.41.3-12.fc44.x86_ 100% |   8.7 MiB/s |  26.6 KiB |  00m00s
[ 96/182] util-linux-core-0:2.41.3-12.f 100% | 181.6 MiB/s | 557.8 KiB |  00m00s
[ 97/182] zlib-ng-compat-0:2.3.2-3.fc44 100% |  45.4 MiB/s |  93.0 KiB |  00m00s
[ 98/182] glibc-gconv-extra-0:2.42.9000 100% | 270.2 MiB/s |   1.6 MiB |  00m00s
[ 99/182] ncurses-base-0:6.5-9.20250614 100% |  17.2 MiB/s |  88.2 KiB |  00m00s
[100/182] gnulib-l10n-0:20241231-2.fc44 100% |  36.7 MiB/s | 150.3 KiB |  00m00s
[101/182] libsepol-0:3.9-3.fc44.x86_64  100% | 177.2 MiB/s | 362.9 KiB |  00m00s
[102/182] ca-certificates-0:2025.2.80_v 100% | 237.7 MiB/s | 973.5 KiB |  00m00s
[103/182] crypto-policies-0:20251128-3. 100% |  24.0 MiB/s |  98.3 KiB |  00m00s
[104/182] fedora-gpg-keys-0:44-0.1.noar 100% |  45.2 MiB/s | 138.8 KiB |  00m00s
[105/182] fedora-repos-rawhide-0:44-0.1 100% |   8.4 MiB/s |   8.6 KiB |  00m00s
[106/182] pcre2-syntax-0:10.47-1.fc44.1 100% |  80.4 MiB/s | 164.7 KiB |  00m00s
[107/182] add-determinism-0:0.7.2-3.fc4 100% | 286.9 MiB/s | 881.3 KiB |  00m00s
[108/182] linkdupes-0:0.7.2-3.fc44.x86_ 100% | 115.6 MiB/s | 355.1 KiB |  00m00s
[109/182] file-libs-0:5.46-9.fc44.x86_6 100% | 277.8 MiB/s | 853.4 KiB |  00m00s
[110/182] curl-0:8.18.0-3.fc44.x86_64   100% | 117.7 MiB/s | 241.1 KiB |  00m00s
[111/182] elfutils-libs-0:0.194-3.fc44. 100% | 138.1 MiB/s | 282.8 KiB |  00m00s
[112/182] elfutils-debuginfod-client-0: 100% |  45.6 MiB/s |  46.7 KiB |  00m00s
[113/182] libzstd-0:1.5.7-5.fc44.x86_64 100% | 177.8 MiB/s | 364.2 KiB |  00m00s
[114/182] libxml2-0:2.12.10-6.fc44.x86_ 100% | 235.9 MiB/s | 724.6 KiB |  00m00s
[115/182] lz4-libs-0:1.10.0-4.fc44.x86_ 100% |  25.3 MiB/s |  77.7 KiB |  00m00s
[116/182] libgomp-0:16.0.1-0.3.fc44.1.x 100% | 121.8 MiB/s | 374.2 KiB |  00m00s
[117/182] lua-libs-0:5.4.8-5.fc44.x86_6 100% |  66.7 MiB/s | 136.6 KiB |  00m00s
[118/182] rpm-sign-libs-0:6.0.1-2.fc44. 100% |  13.7 MiB/s |  28.0 KiB |  00m00s
[119/182] rpm-sequoia-0:1.10.0-2.fc44.x 100% | 229.4 MiB/s | 939.7 KiB |  00m00s
[120/182] elfutils-default-yama-scope-0 100% |   3.9 MiB/s |  11.9 KiB |  00m00s
[121/182] sqlite-libs-0:3.51.2-1.fc44.x 100% | 195.1 MiB/s | 799.2 KiB |  00m00s
[122/182] json-c-0:0.18-8.fc44.x86_64   100% |  45.2 MiB/s |  46.3 KiB |  00m00s
[123/182] gnupg2-0:2.4.9-4.fc44.x86_64  100% | 413.3 MiB/s |   1.7 MiB |  00m00s
[124/182] ima-evm-utils-libs-0:1.6.2-8. 100% |   7.3 MiB/s |  30.0 KiB |  00m00s
[125/182] libfsverity-0:1.6-4.fc44.x86_ 100% |   4.7 MiB/s |  19.2 KiB |  00m00s
[126/182] gpgverify-0:2.2-4.fc44.noarch 100% |  11.0 MiB/s |  11.2 KiB |  00m00s
[127/182] gnupg2-dirmngr-0:2.4.9-4.fc44 100% | 138.0 MiB/s | 282.5 KiB |  00m00s
[128/182] gnupg2-gpg-agent-0:2.4.9-4.fc 100% |  91.6 MiB/s | 281.4 KiB |  00m00s
[129/182] gnupg2-gpgconf-0:2.4.9-4.fc44 100% |  57.2 MiB/s | 117.2 KiB |  00m00s
[130/182] gnupg2-keyboxd-0:2.4.9-4.fc44 100% |  23.8 MiB/s |  97.4 KiB |  00m00s
[131/182] gnupg2-verify-0:2.4.9-4.fc44. 100% |  57.6 MiB/s | 176.9 KiB |  00m00s
[132/182] libassuan-0:2.5.7-5.fc44.x86_ 100% |  22.4 MiB/s |  68.9 KiB |  00m00s
[133/182] libgcrypt-0:1.11.2-1.fc44.x86 100% | 194.1 MiB/s | 596.1 KiB |  00m00s
[134/182] libgpg-error-0:1.58-2.fc44.x8 100% |  49.6 MiB/s | 254.1 KiB |  00m00s
[135/182] npth-0:1.8-4.fc44.x86_64      100% |   5.0 MiB/s |  25.8 KiB |  00m00s
[136/182] tpm2-tss-0:4.1.3-9.fc44.x86_6 100% | 107.6 MiB/s | 440.9 KiB |  00m00s
[137/182] gnutls-0:3.8.11-10.fc44.x86_6 100% | 233.6 MiB/s |   1.4 MiB |  00m00s
[138/182] libksba-0:1.6.7-5.fc44.x86_64 100% |  27.2 MiB/s | 167.4 KiB |  00m00s
[139/182] openldap-0:2.6.10-7.fc44.x86_ 100% |  52.9 MiB/s | 271.1 KiB |  00m00s
[140/182] libusb1-0:1.0.29-5.fc44.x86_6 100% |  80.8 MiB/s |  82.8 KiB |  00m00s
[141/182] libidn2-0:2.3.8-3.fc44.x86_64 100% |  85.7 MiB/s | 175.6 KiB |  00m00s
[142/182] libtasn1-0:4.20.0-3.fc44.x86_ 100% |  37.2 MiB/s |  76.2 KiB |  00m00s
[143/182] libunistring-0:1.1-11.fc44.x8 100% | 178.3 MiB/s | 547.8 KiB |  00m00s
[144/182] nettle-0:3.10.1-3.fc44.x86_64 100% | 139.3 MiB/s | 428.0 KiB |  00m00s
[145/182] p11-kit-0:0.25.8-2.fc44.x86_6 100% | 168.1 MiB/s | 516.5 KiB |  00m00s
[146/182] cyrus-sasl-lib-0:2.1.28-35.fc 100% | 260.7 MiB/s | 800.7 KiB |  00m00s
[147/182] libevent-0:2.1.12-17.fc44.x86 100% |  93.5 MiB/s | 287.4 KiB |  00m00s
[148/182] libtool-ltdl-0:2.5.4-10.fc44. 100% |  18.1 MiB/s |  37.0 KiB |  00m00s
[149/182] libffi-0:3.5.2-2.fc44.x86_64  100% |  41.4 MiB/s |  42.4 KiB |  00m00s
[150/182] gdbm-libs-1:1.23-11.fc44.x86_ 100% |  57.4 MiB/s |  58.8 KiB |  00m00s
[151/182] alternatives-0:1.33-5.fc44.x8 100% |   5.7 MiB/s |  40.8 KiB |  00m00s
[152/182] jansson-0:2.14-4.fc44.x86_64  100% |   5.8 MiB/s |  47.1 KiB |  00m00s
[153/182] binutils-0:2.45.50-19.fc44.x8 100% | 357.9 MiB/s |   6.1 MiB |  00m00s
[154/182] pkgconf-pkg-config-0:2.3.0-4. 100% |   1.1 MiB/s |   9.7 KiB |  00m00s
[155/182] pkgconf-0:2.3.0-4.fc44.x86_64 100% |   6.3 MiB/s |  45.0 KiB |  00m00s
[156/182] pkgconf-m4-0:2.3.0-4.fc44.noa 100% |  13.7 MiB/s |  14.1 KiB |  00m00s
[157/182] libpkgconf-0:2.3.0-4.fc44.x86 100% |  37.9 MiB/s |  38.8 KiB |  00m00s
[158/182] p11-kit-trust-0:0.25.8-2.fc44 100% |  70.7 MiB/s | 144.8 KiB |  00m00s
[159/182] fedora-release-0:44-0.10.noar 100% |  13.2 MiB/s |  13.5 KiB |  00m00s
[160/182] systemd-standalone-sysusers-0 100% | 144.8 MiB/s | 148.3 KiB |  00m00s
[161/182] xxhash-libs-0:0.8.3-4.fc44.x8 100% |   8.1 MiB/s |  41.2 KiB |  00m00s
[162/182] gdb-minimal-0:17.1-2.fc44.x86 100% | 368.1 MiB/s |   4.8 MiB |  00m00s
[163/182] fedora-release-identity-basic 100% |   1.2 MiB/s |  14.3 KiB |  00m00s
[164/182] libcurl-0:8.18.0-3.fc44.x86_6 100% |  55.6 MiB/s | 455.1 KiB |  00m00s
[165/182] krb5-libs-0:1.21.3-12.fc44.x8 100% | 258.3 MiB/s | 793.5 KiB |  00m00s
[166/182] libbrotli-0:1.2.0-3.fc44.x86_ 100% | 113.2 MiB/s | 347.8 KiB |  00m00s
[167/182] libnghttp2-0:1.68.0-3.fc44.x8 100% |  25.1 MiB/s |  77.2 KiB |  00m00s
[168/182] libnghttp3-0:1.15.0-1.fc44.x8 100% |  72.2 MiB/s |  73.9 KiB |  00m00s
[169/182] libpsl-0:0.21.5-7.fc44.x86_64 100% |  31.9 MiB/s |  65.3 KiB |  00m00s
[170/182] libssh-0:0.11.3-1.fc44.x86_64 100% |  75.8 MiB/s | 232.8 KiB |  00m00s
[171/182] ngtcp2-0:1.19.0-2.fc44.x86_64 100% |  37.8 MiB/s | 154.8 KiB |  00m00s
[172/182] ngtcp2-crypto-ossl-0:1.19.0-2 100% |   6.7 MiB/s |  27.4 KiB |  00m00s
[173/182] keyutils-libs-0:1.6.3-7.fc44. 100% |  10.3 MiB/s |  31.5 KiB |  00m00s
[174/182] libcom_err-0:1.47.3-4.fc44.x8 100% |  13.2 MiB/s |  27.1 KiB |  00m00s
[175/182] libverto-0:0.3.2-12.fc44.x86_ 100% |  10.3 MiB/s |  21.1 KiB |  00m00s
[176/182] publicsuffix-list-dafsa-0:202 100% |  29.4 MiB/s |  60.3 KiB |  00m00s
[177/182] libssh-config-0:0.11.3-1.fc44 100% |   4.4 MiB/s |   9.1 KiB |  00m00s
[178/182] policycoreutils-0:3.9-8.fc44. 100% |  31.6 MiB/s | 258.6 KiB |  00m00s
[179/182] selinux-policy-0:42.22-1.fc44 100% |   5.5 MiB/s |  67.8 KiB |  00m00s
[180/182] libselinux-utils-0:3.9-7.fc44 100% |  16.7 MiB/s | 119.7 KiB |  00m00s
[181/182] selinux-policy-targeted-0:42. 100% | 262.0 MiB/s |   6.8 MiB |  00m00s
[182/182] rpm-plugin-selinux-0:6.0.1-2. 100% |   1.6 MiB/s |  19.2 KiB |  00m00s
--------------------------------------------------------------------------------
[182/182] Total                         100% | 231.3 MiB/s |  68.5 MiB |  00m00s
Running transaction
Importing OpenPGP key 0x6D9F90A6:
 UserID     : "Fedora (44) <fedora-44-primary@fedoraproject.org>"
 Fingerprint: 36F612DCF27F7D1A48A835E4DBFCF71C6D9F90A6
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-44-primary
The key was successfully imported.
Importing OpenPGP key 0x6D9F90A6:
 UserID     : "Fedora (44) <fedora-44-primary@fedoraproject.org>"
 Fingerprint: 36F612DCF27F7D1A48A835E4DBFCF71C6D9F90A6
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-44-primary
The key was successfully imported.
Importing OpenPGP key 0x31645531:
 UserID     : "Fedora (43) <fedora-43-primary@fedoraproject.org>"
 Fingerprint: C6E7F081CF80E13146676E88829B606631645531
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-43-primary
The key was successfully imported.
Importing OpenPGP key 0xF577861E:
 UserID     : "Fedora (45) <fedora-45-primary@fedoraproject.org>"
 Fingerprint: 4F50A6114CD5C6976A7F1179655A4B02F577861E
 From       : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-45-primary
The key was successfully imported.
[  1/184] Verify package files          100% | 722.0   B/s | 182.0   B |  00m00s
[  2/184] Prepare transaction           100% |   3.6 KiB/s | 182.0   B |  00m00s
[  3/184] Installing libgcc-0:16.0.1-0. 100% | 266.0 MiB/s | 272.3 KiB |  00m00s
[  4/184] Installing libssh-config-0:0. 100% |   0.0   B/s | 816.0   B |  00m00s
[  5/184] Installing publicsuffix-list- 100% |   0.0   B/s |  71.1 KiB |  00m00s
[  6/184] Installing fedora-release-ide 100% |   0.0   B/s | 920.0   B |  00m00s
[  7/184] Installing fedora-gpg-keys-0: 100% |  43.7 MiB/s | 179.0 KiB |  00m00s
[  8/184] Installing fedora-repos-rawhi 100% |   0.0   B/s |   2.4 KiB |  00m00s
[  9/184] Installing fedora-repos-0:44- 100% |   0.0   B/s |   5.7 KiB |  00m00s
[ 10/184] Installing fedora-release-com 100% |  24.3 MiB/s |  24.9 KiB |  00m00s
[ 11/184] Installing fedora-release-0:4 100% |  15.1 KiB/s | 124.0   B |  00m00s
>>> Running sysusers scriptlet: setup-0:2.15.0-28.fc44.noarch
>>> Finished sysusers scriptlet: setup-0:2.15.0-28.fc44.noarch
>>> Scriptlet output:
>>> Creating group 'adm' with GID 4.
>>> Creating group 'audio' with GID 63.
>>> Creating group 'cdrom' with GID 11.
>>> Creating group 'clock' with GID 103.
>>> Creating group 'dialout' with GID 18.
>>> Creating group 'disk' with GID 6.
>>> Creating group 'floppy' with GID 19.
>>> Creating group 'ftp' with GID 50.
>>> Creating group 'games' with GID 20.
>>> Creating group 'input' with GID 104.
>>> Creating group 'kmem' with GID 9.
>>> Creating group 'kvm' with GID 36.
>>> Creating group 'lock' with GID 54.
>>> Creating group 'lp' with GID 7.
>>> Creating group 'mail' with GID 12.
>>> Creating group 'man' with GID 15.
>>> Creating group 'mem' with GID 8.
>>> Creating group 'nobody' with GID 65534.
>>> Creating group 'render' with GID 105.
>>> Creating group 'root' with GID 0.
>>> Creating group 'sgx' with GID 106.
>>> Creating group 'sys' with GID 3.
>>> Creating group 'tape' with GID 33.
>>> Creating group 'tty' with GID 5.
>>> Creating group 'users' with GID 100.
>>> Creating group 'utmp' with GID 22.
>>> Creating group 'video' with GID 39.
>>> Creating group 'wheel' with GID 10.
>>> Creating user 'adm' (adm) with UID 3 and GID 4.
>>> Creating group 'bin' with GID 1.
>>> Creating user 'bin' (bin) with UID 1 and GID 1.
>>> Creating group 'daemon' with GID 2.
>>> Creating user 'daemon' (daemon) with UID 2 and GID 2.
>>> Creating user 'ftp' (FTP User) with UID 14 and GID 50.
>>> Creating user 'games' (games) with UID 12 and GID 100.
>>> Creating user 'halt' (halt) with UID 7 and GID 0.
>>> Creating user 'lp' (lp) with UID 4 and GID 7.
>>> Creating user 'mail' (mail) with UID 8 and GID 12.
>>> Creating user 'nobody' (Kernel Overflow User) with UID 65534 and GID 65534.
>>> Creating user 'operator' (operator) with UID 11 and GID 0.
>>> Creating user 'root' (Super User) with UID 0 and GID 0.
>>> Creating user 'shutdown' (shutdown) with UID 6 and GID 0.
>>> Creating user 'sync' (sync) with UID 5 and GID 0.
>>> 
[ 12/184] Installing setup-0:2.15.0-28. 100% |  54.9 MiB/s | 730.6 KiB |  00m00s
>>> [RPM] /etc/hosts created as /etc/hosts.rpmnew
[ 13/184] Installing filesystem-0:3.18- 100% |   3.0 MiB/s | 212.8 KiB |  00m00s
[ 14/184] Installing pkgconf-m4-0:2.3.0 100% |   0.0   B/s |  14.8 KiB |  00m00s
[ 15/184] Installing pcre2-syntax-0:10. 100% | 277.7 MiB/s | 284.3 KiB |  00m00s
[ 16/184] Installing gnulib-l10n-0:2024 100% | 215.5 MiB/s | 661.9 KiB |  00m00s
[ 17/184] Installing coreutils-common-0 100% | 431.9 MiB/s |  11.2 MiB |  00m00s
[ 18/184] Installing ncurses-base-0:6.5 100% |  86.3 MiB/s | 353.5 KiB |  00m00s
[ 19/184] Installing bash-0:5.3.9-3.fc4 100% | 292.5 MiB/s |   8.5 MiB |  00m00s
[ 20/184] Installing glibc-common-0:2.4 100% |  68.3 MiB/s |   1.0 MiB |  00m00s
[ 21/184] Installing glibc-gconv-extra- 100% | 311.0 MiB/s |   7.5 MiB |  00m00s
[ 22/184] Installing glibc-0:2.42.9000- 100% | 204.4 MiB/s |   7.0 MiB |  00m00s
[ 23/184] Installing ncurses-libs-0:6.5 100% | 237.2 MiB/s | 971.5 KiB |  00m00s
[ 24/184] Installing glibc-minimal-lang 100% |   0.0   B/s | 124.0   B |  00m00s
[ 25/184] Installing zlib-ng-compat-0:2 100% | 166.4 MiB/s | 170.4 KiB |  00m00s
[ 26/184] Installing bzip2-libs-0:1.0.8 100% |  79.7 MiB/s |  81.6 KiB |  00m00s
[ 27/184] Installing libgpg-error-0:1.5 100% |  66.1 MiB/s | 947.5 KiB |  00m00s
[ 28/184] Installing libstdc++-0:16.0.1 100% | 416.9 MiB/s |   2.9 MiB |  00m00s
[ 29/184] Installing libassuan-0:2.5.7- 100% | 161.8 MiB/s | 165.7 KiB |  00m00s
[ 30/184] Installing libgcrypt-0:1.11.2 100% | 394.0 MiB/s |   1.6 MiB |  00m00s
[ 31/184] Installing readline-0:8.3-4.f 100% | 254.7 MiB/s | 521.6 KiB |  00m00s
[ 32/184] Installing gmp-1:6.3.0-5.fc44 100% | 399.2 MiB/s | 817.5 KiB |  00m00s
[ 33/184] Installing xz-libs-1:5.8.2-2. 100% | 213.7 MiB/s | 218.8 KiB |  00m00s
[ 34/184] Installing libuuid-0:2.41.3-1 100% |   0.0   B/s |  38.2 KiB |  00m00s
[ 35/184] Installing popt-0:1.19-10.fc4 100% |  68.0 MiB/s | 139.3 KiB |  00m00s
[ 36/184] Installing libzstd-0:1.5.7-5. 100% | 311.6 MiB/s | 957.4 KiB |  00m00s
[ 37/184] Installing elfutils-libelf-0: 100% | 376.3 MiB/s |   1.1 MiB |  00m00s
[ 38/184] Installing npth-0:1.8-4.fc44. 100% |   0.0   B/s |  50.6 KiB |  00m00s
[ 39/184] Installing libblkid-0:2.41.3- 100% | 269.0 MiB/s | 275.4 KiB |  00m00s
[ 40/184] Installing systemd-libs-0:259 100% | 348.9 MiB/s |   2.4 MiB |  00m00s
[ 41/184] Installing libxcrypt-0:4.5.2- 100% | 289.0 MiB/s | 295.9 KiB |  00m00s
[ 42/184] Installing libsepol-0:3.9-3.f 100% | 421.3 MiB/s | 862.8 KiB |  00m00s
[ 43/184] Installing sqlite-libs-0:3.51 100% | 397.6 MiB/s |   1.6 MiB |  00m00s
[ 44/184] Installing gnupg2-gpgconf-0:2 100% |  20.5 MiB/s | 251.8 KiB |  00m00s
[ 45/184] Installing libattr-0:2.5.2-8. 100% |   0.0   B/s |  25.2 KiB |  00m00s
[ 46/184] Installing libacl-0:2.3.2-6.f 100% |   0.0   B/s |  36.6 KiB |  00m00s
[ 47/184] Installing pcre2-0:10.47-1.fc 100% | 351.6 MiB/s | 720.0 KiB |  00m00s
[ 48/184] Installing libselinux-0:3.9-7 100% | 197.5 MiB/s | 202.3 KiB |  00m00s
[ 49/184] Installing grep-0:3.12-3.fc44 100% |  66.8 MiB/s |   1.0 MiB |  00m00s
[ 50/184] Installing sed-0:4.9-7.fc44.x 100% |  60.4 MiB/s | 865.4 KiB |  00m00s
[ 51/184] Installing findutils-1:4.10.0 100% | 116.8 MiB/s |   1.9 MiB |  00m00s
[ 52/184] Installing libtasn1-0:4.20.0- 100% | 177.7 MiB/s | 182.0 KiB |  00m00s
[ 53/184] Installing libunistring-0:1.1 100% | 346.9 MiB/s |   1.7 MiB |  00m00s
[ 54/184] Installing libidn2-0:2.3.8-3. 100% |  68.7 MiB/s | 562.6 KiB |  00m00s
[ 55/184] Installing crypto-policies-0: 100% |  38.5 MiB/s | 157.7 KiB |  00m00s
[ 56/184] Installing xz-1:5.8.2-2.fc44. 100% |  80.5 MiB/s |   1.4 MiB |  00m00s
[ 57/184] Installing libmount-0:2.41.3- 100% | 380.6 MiB/s | 389.7 KiB |  00m00s
[ 58/184] Installing gnupg2-verify-0:2. 100% |  29.4 MiB/s | 361.7 KiB |  00m00s
[ 59/184] Installing dwz-0:0.16-3.fc44. 100% |  23.8 MiB/s | 292.3 KiB |  00m00s
[ 60/184] Installing mpfr-0:4.2.2-3.fc4 100% | 276.9 MiB/s | 850.8 KiB |  00m00s
[ 61/184] Installing gawk-0:5.3.2-3.fc4 100% | 107.9 MiB/s |   1.8 MiB |  00m00s
[ 62/184] Installing libksba-0:1.6.7-5. 100% | 203.6 MiB/s | 416.9 KiB |  00m00s
[ 63/184] Installing unzip-0:6.0-69.fc4 100% |  36.6 MiB/s | 449.3 KiB |  00m00s
[ 64/184] Installing file-libs-0:5.46-9 100% | 697.7 MiB/s |  11.9 MiB |  00m00s
[ 65/184] Installing file-0:5.46-9.fc44 100% |   8.3 MiB/s | 101.6 KiB |  00m00s
[ 66/184] Installing diffutils-0:3.12-5 100% | 104.8 MiB/s |   1.6 MiB |  00m00s
[ 67/184] Installing libeconf-0:0.7.9-3 100% |  64.9 MiB/s |  66.4 KiB |  00m00s
[ 68/184] Installing libcap-ng-0:0.9-5. 100% |  68.9 MiB/s |  70.5 KiB |  00m00s
[ 69/184] Installing audit-libs-0:4.1.2 100% | 383.7 MiB/s | 392.9 KiB |  00m00s
[ 70/184] Installing pam-libs-0:1.7.2-1 100% | 129.8 MiB/s | 132.9 KiB |  00m00s
[ 71/184] Installing libcap-0:2.77-2.fc 100% |  17.7 MiB/s | 217.2 KiB |  00m00s
[ 72/184] Installing libsemanage-0:3.9- 100% | 306.7 MiB/s | 314.1 KiB |  00m00s
[ 73/184] Installing libsmartcols-0:2.4 100% | 184.9 MiB/s | 189.3 KiB |  00m00s
[ 74/184] Installing lua-libs-0:5.4.8-5 100% | 276.6 MiB/s | 283.2 KiB |  00m00s
[ 75/184] Installing json-c-0:0.18-8.fc 100% |  81.9 MiB/s |  83.9 KiB |  00m00s
[ 76/184] Installing libffi-0:3.5.2-2.f 100% |  87.0 MiB/s |  89.1 KiB |  00m00s
[ 77/184] Installing p11-kit-0:0.25.8-2 100% | 128.7 MiB/s |   2.3 MiB |  00m00s
[ 78/184] Installing alternatives-0:1.3 100% |   5.6 MiB/s |  63.6 KiB |  00m00s
[ 79/184] Installing p11-kit-trust-0:0. 100% |  22.5 MiB/s | 460.0 KiB |  00m00s
[ 80/184] Installing ngtcp2-0:1.19.0-2. 100% | 162.0 MiB/s | 331.7 KiB |  00m00s
[ 81/184] Installing openssl-libs-1:3.5 100% | 382.7 MiB/s |   9.2 MiB |  00m00s
[ 82/184] Installing coreutils-0:9.9-4. 100% | 171.4 MiB/s |   5.5 MiB |  00m00s
[ 83/184] Installing ca-certificates-0: 100% |   2.2 MiB/s |   2.5 MiB |  00m01s
[ 84/184] Installing gzip-0:1.14-2.fc44 100% |  28.4 MiB/s | 407.1 KiB |  00m00s
[ 85/184] Installing rpm-sequoia-0:1.10 100% | 352.3 MiB/s |   2.5 MiB |  00m00s
[ 86/184] Installing libfsverity-0:1.6- 100% |   0.0   B/s |  29.4 KiB |  00m00s
[ 87/184] Installing libevent-0:2.1.12- 100% | 319.8 MiB/s | 982.4 KiB |  00m00s
[ 88/184] Installing ngtcp2-crypto-ossl 100% |  51.2 MiB/s |  52.5 KiB |  00m00s
[ 89/184] Installing util-linux-core-0: 100% |  87.2 MiB/s |   1.5 MiB |  00m00s
[ 90/184] Installing zip-0:3.0-45.fc44. 100% |  52.7 MiB/s | 701.9 KiB |  00m00s
[ 91/184] Installing gnupg2-keyboxd-0:2 100% |  33.0 MiB/s | 202.5 KiB |  00m00s
[ 92/184] Installing libpsl-0:0.21.5-7. 100% |  75.6 MiB/s |  77.4 KiB |  00m00s
[ 93/184] Installing tar-2:1.35-8.fc44. 100% | 156.7 MiB/s |   3.0 MiB |  00m00s
[ 94/184] Installing linkdupes-0:0.7.2- 100% |  62.2 MiB/s | 828.0 KiB |  00m00s
[ 95/184] Installing libselinux-utils-0 100% |  24.0 MiB/s | 319.9 KiB |  00m00s
[ 96/184] Installing liblastlog2-0:2.41 100% |   6.5 MiB/s |  39.8 KiB |  00m00s
[ 97/184] Installing systemd-standalone 100% |  22.7 MiB/s | 302.1 KiB |  00m00s
[ 98/184] Installing rpm-libs-0:6.0.1-2 100% | 313.4 MiB/s | 962.8 KiB |  00m00s
[ 99/184] Installing libusb1-0:1.0.29-5 100% |  24.7 MiB/s | 176.9 KiB |  00m00s
>>> Running sysusers scriptlet: tpm2-tss-0:4.1.3-9.fc44.x86_64
>>> Finished sysusers scriptlet: tpm2-tss-0:4.1.3-9.fc44.x86_64
>>> Scriptlet output:
>>> Creating group 'tss' with GID 59.
>>> Creating user 'tss' (Account used for TPM access) with UID 59 and GID 59.
>>> 
[100/184] Installing tpm2-tss-0:4.1.3-9 100% | 272.2 MiB/s |   1.6 MiB |  00m00s
[101/184] Installing ima-evm-utils-libs 100% |  60.4 MiB/s |  61.9 KiB |  00m00s
[102/184] Installing gnupg2-gpg-agent-0 100% |  35.3 MiB/s | 686.5 KiB |  00m00s
[103/184] Installing libfdisk-0:2.41.3- 100% | 190.2 MiB/s | 389.4 KiB |  00m00s
[104/184] Installing util-linux-0:2.41. 100% | 102.4 MiB/s |   3.6 MiB |  00m00s
[105/184] Installing policycoreutils-0: 100% |  35.6 MiB/s | 912.3 KiB |  00m00s
[106/184] Installing selinux-policy-0:4 100% |   1.6 MiB/s |  33.6 KiB |  00m00s
[107/184] Installing selinux-policy-tar 100% | 202.7 MiB/s |  14.8 MiB |  00m00s
[108/184] Installing zstd-0:1.5.7-5.fc4 100% |  32.9 MiB/s | 506.0 KiB |  00m00s
[109/184] Installing libxml2-0:2.12.10- 100% | 110.7 MiB/s |   1.8 MiB |  00m00s
[110/184] Installing nettle-0:3.10.1-3. 100% | 259.6 MiB/s | 797.4 KiB |  00m00s
[111/184] Installing gnutls-0:3.8.11-10 100% | 373.1 MiB/s |   3.7 MiB |  00m00s
[112/184] Installing bzip2-0:1.0.8-23.f 100% |   8.1 MiB/s |  99.5 KiB |  00m00s
[113/184] Installing add-determinism-0: 100% | 133.5 MiB/s |   2.3 MiB |  00m00s
[114/184] Installing build-reproducibil 100% |   0.0   B/s |   1.5 KiB |  00m00s
[115/184] Installing cpio-0:2.15-6.fc43 100% |  73.3 MiB/s |   1.1 MiB |  00m00s
[116/184] Installing ed-0:1.22.4-2.fc44 100% |  12.3 MiB/s | 151.4 KiB |  00m00s
[117/184] Installing patch-0:2.8-4.fc44 100% |  18.6 MiB/s | 228.1 KiB |  00m00s
[118/184] Installing lz4-libs-0:1.10.0- 100% | 154.6 MiB/s | 158.4 KiB |  00m00s
[119/184] Installing libarchive-0:3.8.4 100% | 323.3 MiB/s | 993.1 KiB |  00m00s
[120/184] Installing libgomp-0:16.0.1-0 100% | 279.7 MiB/s | 572.9 KiB |  00m00s
[121/184] Installing libtool-ltdl-0:2.5 100% |  69.5 MiB/s |  71.1 KiB |  00m00s
[122/184] Installing gdbm-libs-1:1.23-1 100% | 128.3 MiB/s | 131.3 KiB |  00m00s
[123/184] Installing cyrus-sasl-lib-0:2 100% | 135.9 MiB/s |   2.3 MiB |  00m00s
[124/184] Installing openldap-0:2.6.10- 100% | 218.5 MiB/s | 671.3 KiB |  00m00s
[125/184] Installing gnupg2-dirmngr-0:2 100% |  31.1 MiB/s | 636.7 KiB |  00m00s
[126/184] Installing gnupg2-0:2.4.9-4.f 100% | 232.4 MiB/s |   6.5 MiB |  00m00s
[127/184] Installing rpm-sign-libs-0:6. 100% |  39.5 MiB/s |  40.5 KiB |  00m00s
[128/184] Installing gpgverify-0:2.2-4. 100% |   0.0   B/s |   9.4 KiB |  00m00s
[129/184] Installing jansson-0:2.14-4.f 100% |  88.2 MiB/s |  90.3 KiB |  00m00s
[130/184] Installing libpkgconf-0:2.3.0 100% |  77.3 MiB/s |  79.2 KiB |  00m00s
[131/184] Installing pkgconf-0:2.3.0-4. 100% |   7.4 MiB/s |  90.8 KiB |  00m00s
[132/184] Installing pkgconf-pkg-config 100% | 161.2 KiB/s |   1.8 KiB |  00m00s
[133/184] Installing xxhash-libs-0:0.8. 100% |  93.2 MiB/s |  95.4 KiB |  00m00s
[134/184] Installing libbrotli-0:1.2.0- 100% | 282.3 MiB/s | 867.3 KiB |  00m00s
[135/184] Installing libnghttp2-0:1.68. 100% | 163.3 MiB/s | 167.3 KiB |  00m00s
[136/184] Installing libnghttp3-0:1.15. 100% | 156.8 MiB/s | 160.6 KiB |  00m00s
[137/184] Installing keyutils-libs-0:1. 100% |   0.0   B/s |  55.6 KiB |  00m00s
[138/184] Installing libcom_err-0:1.47. 100% |   0.0   B/s |  64.1 KiB |  00m00s
[139/184] Installing libverto-0:0.3.2-1 100% |  26.4 MiB/s |  27.1 KiB |  00m00s
[140/184] Installing krb5-libs-0:1.21.3 100% | 337.9 MiB/s |   2.4 MiB |  00m00s
[141/184] Installing libssh-0:0.11.3-1. 100% | 277.9 MiB/s | 569.2 KiB |  00m00s
[142/184] Installing libcurl-0:8.18.0-3 100% | 331.4 MiB/s |   1.0 MiB |  00m00s
[143/184] Installing curl-0:8.18.0-3.fc 100% |  22.4 MiB/s | 482.6 KiB |  00m00s
[144/184] Installing rpm-0:6.0.1-2.fc44 100% |  82.3 MiB/s |   2.6 MiB |  00m00s
[145/184] Installing cmake-srpm-macros- 100% |   0.0   B/s | 804.0   B |  00m00s
[146/184] Installing efi-srpm-macros-0: 100% |  40.2 MiB/s |  41.2 KiB |  00m00s
[147/184] Installing java-srpm-macros-0 100% |   0.0   B/s |   1.1 KiB |  00m00s
[148/184] Installing lua-srpm-macros-0: 100% |   0.0   B/s |   1.9 KiB |  00m00s
[149/184] Installing tree-sitter-srpm-m 100% |   0.0   B/s |   9.3 KiB |  00m00s
[150/184] Installing zig-srpm-macros-0: 100% |   0.0   B/s |   1.9 KiB |  00m00s
[151/184] Installing filesystem-srpm-ma 100% |   0.0   B/s |  38.9 KiB |  00m00s
[152/184] Installing elfutils-default-y 100% | 510.7 KiB/s |   2.0 KiB |  00m00s
[153/184] Installing elfutils-libs-0:0. 100% | 233.4 MiB/s | 717.0 KiB |  00m00s
[154/184] Installing elfutils-debuginfo 100% |   6.0 MiB/s |  86.0 KiB |  00m00s
[155/184] Installing elfutils-0:0.194-3 100% | 147.9 MiB/s |   3.0 MiB |  00m00s
[156/184] Installing binutils-0:2.45.50 100% | 343.5 MiB/s |  27.5 MiB |  00m00s
[157/184] Installing gdb-minimal-0:17.1 100% | 304.9 MiB/s |  14.3 MiB |  00m00s
[158/184] Installing debugedit-0:5.2-6. 100% |  18.0 MiB/s | 221.6 KiB |  00m00s
[159/184] Installing rpm-build-libs-0:6 100% | 270.6 MiB/s | 277.1 KiB |  00m00s
[160/184] Installing rust-srpm-macros-0 100% |   0.0   B/s |   6.4 KiB |  00m00s
[161/184] Installing qt6-srpm-macros-0: 100% |   0.0   B/s | 740.0   B |  00m00s
[162/184] Installing qt5-srpm-macros-0: 100% |   0.0   B/s | 776.0   B |  00m00s
[163/184] Installing perl-srpm-macros-0 100% |   0.0   B/s |   1.1 KiB |  00m00s
[164/184] Installing package-notes-srpm 100% |   0.0   B/s |   2.0 KiB |  00m00s
[165/184] Installing openblas-srpm-macr 100% |   0.0   B/s | 392.0   B |  00m00s
[166/184] Installing ocaml-srpm-macros- 100% |   0.0   B/s |   2.1 KiB |  00m00s
[167/184] Installing kernel-srpm-macros 100% |   0.0   B/s |   2.3 KiB |  00m00s
[168/184] Installing gnat-srpm-macros-0 100% |   0.0   B/s |   1.3 KiB |  00m00s
[169/184] Installing ghc-srpm-macros-0: 100% |   0.0   B/s |   1.0 KiB |  00m00s
[170/184] Installing gap-srpm-macros-0: 100% |   0.0   B/s |   2.7 KiB |  00m00s
[171/184] Installing fpc-srpm-macros-0: 100% |   0.0   B/s | 420.0   B |  00m00s
[172/184] Installing ansible-srpm-macro 100% |   0.0   B/s |  36.2 KiB |  00m00s
[173/184] Installing redhat-rpm-config- 100% | 185.4 MiB/s | 189.9 KiB |  00m00s
[174/184] Installing forge-srpm-macros- 100% |   0.0   B/s |  40.3 KiB |  00m00s
[175/184] Installing fonts-srpm-macros- 100% |  11.1 MiB/s |  57.0 KiB |  00m00s
[176/184] Installing go-srpm-macros-0:3 100% |  61.6 MiB/s |  63.0 KiB |  00m00s
[177/184] Installing rpm-build-0:6.0.1- 100% |  22.8 MiB/s | 303.7 KiB |  00m00s
[178/184] Installing pyproject-srpm-mac 100% |   0.0   B/s |   2.5 KiB |  00m00s
[179/184] Installing R-srpm-macros-0:1. 100% |   0.0   B/s |   4.2 KiB |  00m00s
[180/184] Installing python-srpm-macros 100% |   0.0   B/s |  52.9 KiB |  00m00s
[181/184] Installing rpm-plugin-selinux 100% |   0.0   B/s |  12.9 KiB |  00m00s
[182/184] Installing which-0:2.23-4.fc4 100% |   6.4 MiB/s |  85.6 KiB |  00m00s
[183/184] Installing shadow-utils-2:4.1 100% | 147.1 MiB/s |   4.0 MiB |  00m00s
[184/184] Installing info-0:7.2-7.fc44. 100% |  52.3 KiB/s | 358.3 KiB |  00m07s
Complete!
Finish: installing minimal buildroot with dnf5
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: R-srpm-macros-1.3.4-3.fc44.noarch
add-determinism-0.7.2-3.fc44.x86_64
alternatives-1.33-5.fc44.x86_64
ansible-srpm-macros-1-20.1.fc44.noarch
audit-libs-4.1.2-4.fc44.x86_64
bash-5.3.9-3.fc44.x86_64
binutils-2.45.50-19.fc44.x86_64
build-reproducibility-srpm-macros-0.7.2-3.fc44.noarch
bzip2-1.0.8-23.fc44.x86_64
bzip2-libs-1.0.8-23.fc44.x86_64
ca-certificates-2025.2.80_v9.0.304-5.fc44.noarch
cmake-srpm-macros-3.31.10-5.fc44.noarch
coreutils-9.9-4.fc44.x86_64
coreutils-common-9.9-4.fc44.x86_64
cpio-2.15-6.fc43.x86_64
crypto-policies-20251128-3.git19878fe.fc44.noarch
curl-8.18.0-3.fc44.x86_64
cyrus-sasl-lib-2.1.28-35.fc44.x86_64
debugedit-5.2-6.fc44.x86_64
diffutils-3.12-5.fc44.x86_64
dwz-0.16-3.fc44.x86_64
ed-1.22.4-2.fc44.x86_64
efi-srpm-macros-6-6.fc44.noarch
elfutils-0.194-3.fc44.x86_64
elfutils-debuginfod-client-0.194-3.fc44.x86_64
elfutils-default-yama-scope-0.194-3.fc44.noarch
elfutils-libelf-0.194-3.fc44.x86_64
elfutils-libs-0.194-3.fc44.x86_64
fedora-gpg-keys-44-0.1.noarch
fedora-release-44-0.10.noarch
fedora-release-common-44-0.10.noarch
fedora-release-identity-basic-44-0.10.noarch
fedora-repos-44-0.1.noarch
fedora-repos-rawhide-44-0.1.noarch
file-5.46-9.fc44.x86_64
file-libs-5.46-9.fc44.x86_64
filesystem-3.18-52.fc44.x86_64
filesystem-srpm-macros-3.18-52.fc44.noarch
findutils-4.10.0-7.fc44.x86_64
fonts-srpm-macros-5.0.0-2.fc44.noarch
forge-srpm-macros-0.4.0-4.fc44.noarch
fpc-srpm-macros-1.3-16.fc44.noarch
gap-srpm-macros-2-2.fc44.noarch
gawk-5.3.2-3.fc44.x86_64
gdb-minimal-17.1-2.fc44.x86_64
gdbm-libs-1.23-11.fc44.x86_64
ghc-srpm-macros-1.9.2-4.fc44.noarch
glibc-2.42.9000-25.fc44.x86_64
glibc-common-2.42.9000-25.fc44.x86_64
glibc-gconv-extra-2.42.9000-25.fc44.x86_64
glibc-minimal-langpack-2.42.9000-25.fc44.x86_64
gmp-6.3.0-5.fc44.x86_64
gnat-srpm-macros-7-2.fc44.noarch
gnulib-l10n-20241231-2.fc44.noarch
gnupg2-2.4.9-4.fc44.x86_64
gnupg2-dirmngr-2.4.9-4.fc44.x86_64
gnupg2-gpg-agent-2.4.9-4.fc44.x86_64
gnupg2-gpgconf-2.4.9-4.fc44.x86_64
gnupg2-keyboxd-2.4.9-4.fc44.x86_64
gnupg2-verify-2.4.9-4.fc44.x86_64
gnutls-3.8.11-10.fc44.x86_64
go-srpm-macros-3.8.0-2.fc44.noarch
gpg-pubkey-36f612dcf27f7d1a48a835e4dbfcf71c6d9f90a6-6786af3b
gpg-pubkey-4f50a6114cd5c6976a7f1179655a4b02f577861e-6888bc98
gpg-pubkey-c6e7f081cf80e13146676e88829b606631645531-66b6dccf
gpgverify-2.2-4.fc44.noarch
grep-3.12-3.fc44.x86_64
gzip-1.14-2.fc44.x86_64
ima-evm-utils-libs-1.6.2-8.fc44.x86_64
info-7.2-7.fc44.x86_64
jansson-2.14-4.fc44.x86_64
java-srpm-macros-1-8.fc44.noarch
json-c-0.18-8.fc44.x86_64
kernel-srpm-macros-1.0-28.fc44.noarch
keyutils-libs-1.6.3-7.fc44.x86_64
krb5-libs-1.21.3-12.fc44.x86_64
libacl-2.3.2-6.fc44.x86_64
libarchive-3.8.4-2.fc44.x86_64
libassuan-2.5.7-5.fc44.x86_64
libattr-2.5.2-8.fc44.x86_64
libblkid-2.41.3-12.fc44.x86_64
libbrotli-1.2.0-3.fc44.x86_64
libcap-2.77-2.fc44.x86_64
libcap-ng-0.9-5.fc44.x86_64
libcom_err-1.47.3-4.fc44.x86_64
libcurl-8.18.0-3.fc44.x86_64
libeconf-0.7.9-3.fc44.x86_64
libevent-2.1.12-17.fc44.x86_64
libfdisk-2.41.3-12.fc44.x86_64
libffi-3.5.2-2.fc44.x86_64
libfsverity-1.6-4.fc44.x86_64
libgcc-16.0.1-0.3.fc44.1.x86_64
libgcrypt-1.11.2-1.fc44.x86_64
libgomp-16.0.1-0.3.fc44.1.x86_64
libgpg-error-1.58-2.fc44.x86_64
libidn2-2.3.8-3.fc44.x86_64
libksba-1.6.7-5.fc44.x86_64
liblastlog2-2.41.3-12.fc44.x86_64
libmount-2.41.3-12.fc44.x86_64
libnghttp2-1.68.0-3.fc44.x86_64
libnghttp3-1.15.0-1.fc44.x86_64
libpkgconf-2.3.0-4.fc44.x86_64
libpsl-0.21.5-7.fc44.x86_64
libselinux-3.9-7.fc44.x86_64
libselinux-utils-3.9-7.fc44.x86_64
libsemanage-3.9-5.fc44.x86_64
libsepol-3.9-3.fc44.x86_64
libsmartcols-2.41.3-12.fc44.x86_64
libssh-0.11.3-1.fc44.x86_64
libssh-config-0.11.3-1.fc44.noarch
libstdc++-16.0.1-0.3.fc44.1.x86_64
libtasn1-4.20.0-3.fc44.x86_64
libtool-ltdl-2.5.4-10.fc44.x86_64
libunistring-1.1-11.fc44.x86_64
libusb1-1.0.29-5.fc44.x86_64
libuuid-2.41.3-12.fc44.x86_64
libverto-0.3.2-12.fc44.x86_64
libxcrypt-4.5.2-3.fc44.x86_64
libxml2-2.12.10-6.fc44.x86_64
libzstd-1.5.7-5.fc44.x86_64
linkdupes-0.7.2-3.fc44.x86_64
lua-libs-5.4.8-5.fc44.x86_64
lua-srpm-macros-1-17.fc44.noarch
lz4-libs-1.10.0-4.fc44.x86_64
mpfr-4.2.2-3.fc44.x86_64
ncurses-base-6.5-9.20250614.fc44.noarch
ncurses-libs-6.5-9.20250614.fc44.x86_64
nettle-3.10.1-3.fc44.x86_64
ngtcp2-1.19.0-2.fc44.x86_64
ngtcp2-crypto-ossl-1.19.0-2.fc44.x86_64
npth-1.8-4.fc44.x86_64
ocaml-srpm-macros-11-3.fc44.noarch
openblas-srpm-macros-2-21.fc44.noarch
openldap-2.6.10-7.fc44.x86_64
openssl-libs-3.5.4-2.fc44.x86_64
p11-kit-0.25.8-2.fc44.x86_64
p11-kit-trust-0.25.8-2.fc44.x86_64
package-notes-srpm-macros-0.5-15.fc44.noarch
pam-libs-1.7.2-1.fc44.x86_64
patch-2.8-4.fc44.x86_64
pcre2-10.47-1.fc44.1.x86_64
pcre2-syntax-10.47-1.fc44.1.noarch
perl-srpm-macros-1-61.fc44.noarch
pkgconf-2.3.0-4.fc44.x86_64
pkgconf-m4-2.3.0-4.fc44.noarch
pkgconf-pkg-config-2.3.0-4.fc44.x86_64
policycoreutils-3.9-8.fc44.x86_64
popt-1.19-10.fc44.x86_64
publicsuffix-list-dafsa-20260116-1.fc44.noarch
pyproject-srpm-macros-1.18.6-2.fc44.noarch
python-srpm-macros-3.14-10.fc44.noarch
qt5-srpm-macros-5.15.18-2.fc44.noarch
qt6-srpm-macros-6.10.1-2.fc44.noarch
readline-8.3-4.fc44.x86_64
redhat-rpm-config-343-19.fc44.noarch
rpm-6.0.1-2.fc44.x86_64
rpm-build-6.0.1-2.fc44.x86_64
rpm-build-libs-6.0.1-2.fc44.x86_64
rpm-libs-6.0.1-2.fc44.x86_64
rpm-plugin-selinux-6.0.1-2.fc44.x86_64
rpm-sequoia-1.10.0-2.fc44.x86_64
rpm-sign-libs-6.0.1-2.fc44.x86_64
rust-srpm-macros-28.4-3.fc44.noarch
sed-4.9-7.fc44.x86_64
selinux-policy-42.22-1.fc44.noarch
selinux-policy-targeted-42.22-1.fc44.noarch
setup-2.15.0-28.fc44.noarch
shadow-utils-4.18.0-7.fc44.x86_64
sqlite-libs-3.51.2-1.fc44.x86_64
systemd-libs-259-9.fc44.x86_64
systemd-standalone-sysusers-259-9.fc44.x86_64
tar-1.35-8.fc44.x86_64
tpm2-tss-4.1.3-9.fc44.x86_64
tree-sitter-srpm-macros-0.4.2-2.fc44.noarch
unzip-6.0-69.fc44.x86_64
util-linux-2.41.3-12.fc44.x86_64
util-linux-core-2.41.3-12.fc44.x86_64
which-2.23-4.fc44.x86_64
xxhash-libs-0.8.3-4.fc44.x86_64
xz-5.8.2-2.fc44.x86_64
xz-libs-5.8.2-2.fc44.x86_64
zig-srpm-macros-1-8.fc44.noarch
zip-3.0-45.fc44.x86_64
zlib-ng-compat-2.3.2-3.fc44.x86_64
zstd-1.5.7-5.fc44.x86_64
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.fc44.src.rpm
Finish: rpmbuild -bs
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-x86_64-1769501980.264018/root/var/log/dnf5.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
Finish: buildsrpm
INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-pz_g1mvk/bcftools/bcftools.spec) Config(child) 0 minutes 22 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.fc44.src.rpm)  Config(fedora-rawhide-x86_64)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1769501980.264018/root.
INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1769501980.264018/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start(bootstrap): cleaning package manager metadata
Finish(bootstrap): cleaning package manager metadata
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-1769501980.264018/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-6.0.1-2.fc44.x86_64
  rpm-sequoia-1.10.0-2.fc44.x86_64
  dnf5-5.3.0.0-7.fc44.x86_64
  dnf5-plugins-5.3.0.0-7.fc44.x86_64
Finish: chroot init
Start: build phase for bcftools-1.23-1.fc44.src.rpm
Start: build setup for bcftools-1.23-1.fc44.src.rpm
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.fc44.src.rpm
Updating and loading repositories:
 Copr repository                        100% | 126.5 KiB/s |   1.5 KiB |  00m00s
 fedora                                 100% | 351.9 KiB/s |  26.4 KiB |  00m00s
Repositories loaded.
Package                   Arch   Version                Repository      Size
Installing:
 autoconf                 noarch 0:2.72-10.fc44         fedora       2.8 MiB
 automake                 noarch 0:1.18.1-4.fc44        fedora       1.8 MiB
 gcc                      x86_64 0:16.0.1-0.3.fc44.1    fedora     120.6 MiB
 gsl-devel                x86_64 0:2.8-3.fc44           fedora       1.6 MiB
 htslib-devel             x86_64 0:1.23-1.fc44          copr_base  449.9 KiB
 htslib-tools             x86_64 0:1.23-1.fc44          copr_base    4.0 MiB
 make                     x86_64 1:4.4.1-12.fc44        fedora       1.8 MiB
 perl-ExtUtils-Embed      noarch 0:1.35-521.fc44        fedora      15.6 KiB
 perl-File-Temp           noarch 1:0.231.200-2.fc44     fedora     163.7 KiB
 perl-FindBin             noarch 0:1.54-521.fc44        fedora       6.8 KiB
 perl-Getopt-Long         noarch 1:2.58-521.fc44        fedora     144.5 KiB
 perl-interpreter         x86_64 4:5.42.0-521.fc44      fedora     118.5 KiB
 zlib-ng-compat-devel     x86_64 0:2.3.2-3.fc44         fedora     107.0 KiB
Installing dependencies:
 annobin-docs             noarch 0:13.05-3.fc44         fedora      99.2 KiB
 annobin-plugin-gcc       x86_64 0:13.05-3.fc44         fedora     695.7 KiB
 cmake-filesystem         x86_64 0:3.31.10-5.fc44       fedora       0.0   B
 cpp                      x86_64 0:16.0.1-0.3.fc44.1    fedora      42.1 MiB
 emacs-filesystem         x86_64 1:30.2-2.fc44          fedora       0.0   B
 expat                    x86_64 0:2.7.3-2.fc44         fedora     316.8 KiB
 gcc-plugin-annobin       x86_64 0:16.0.1-0.3.fc44.1    fedora      57.2 KiB
 gettext                  x86_64 0:0.26-4.fc44          fedora      12.8 MiB
 gettext-common-devel     noarch 0:0.26-4.fc44          fedora     593.4 KiB
 gettext-devel            x86_64 0:0.26-4.fc44          fedora       1.3 MiB
 gettext-envsubst         x86_64 0:0.26-4.fc44          fedora      74.6 KiB
 gettext-libs             x86_64 0:0.26-4.fc44          fedora       2.3 MiB
 gettext-runtime          x86_64 0:0.26-4.fc44          fedora     707.5 KiB
 glibc-devel              x86_64 0:2.42.9000-25.fc44    fedora       2.3 MiB
 groff-base               x86_64 0:1.23.0-12.fc44       fedora       3.9 MiB
 gsl                      x86_64 0:2.8-3.fc44           fedora       3.5 MiB
 htslib                   x86_64 0:1.23-1.fc44          copr_base    1.4 MiB
 kernel-headers           x86_64 0:6.19.0-0.rc6.43.fc44 fedora       6.9 MiB
 libatomic                x86_64 0:16.0.1-0.3.fc44.1    fedora      45.3 KiB
 libmpc                   x86_64 0:1.3.1-9.fc44         fedora     160.4 KiB
 libtextstyle             x86_64 0:0.26-4.fc44          fedora     211.4 KiB
 libxcrypt-devel          x86_64 0:4.5.2-3.fc44         fedora      31.0 KiB
 m4                       x86_64 0:1.4.20-3.fc44        fedora     847.9 KiB
 mpdecimal                x86_64 0:4.0.1-3.fc44         fedora     217.1 KiB
 ncurses                  x86_64 0:6.5-9.20250614.fc44  fedora     608.7 KiB
 perl-AutoLoader          noarch 0:5.74-521.fc44        fedora      20.6 KiB
 perl-AutoSplit           noarch 0:5.74-521.fc44        fedora      23.1 KiB
 perl-B                   x86_64 0:1.89-521.fc44        fedora     501.2 KiB
 perl-Benchmark           noarch 0:1.27-521.fc44        fedora      36.4 KiB
 perl-Carp                noarch 0:1.54-521.fc44        fedora      46.6 KiB
 perl-Class-Struct        noarch 0:0.68-521.fc44        fedora      25.4 KiB
 perl-Data-Dumper         x86_64 0:2.191-522.fc44       fedora     115.5 KiB
 perl-Devel-PPPort        x86_64 0:3.73-522.fc44        fedora     889.6 KiB
 perl-Digest              noarch 0:1.20-521.fc44        fedora      35.3 KiB
 perl-Digest-MD5          x86_64 0:2.59-521.fc44        fedora      59.6 KiB
 perl-DynaLoader          x86_64 0:1.57-521.fc44        fedora      32.1 KiB
 perl-Encode              x86_64 4:3.21-521.fc44        fedora       4.7 MiB
 perl-Errno               x86_64 0:1.38-521.fc44        fedora       8.4 KiB
 perl-Exporter            noarch 0:5.79-521.fc44        fedora      54.3 KiB
 perl-ExtUtils-Command    noarch 2:7.76-522.fc44        fedora       9.6 KiB
 perl-ExtUtils-Constant   noarch 0:0.25-521.fc44        fedora      85.9 KiB
 perl-ExtUtils-Install    noarch 0:2.22-521.fc44        fedora      85.5 KiB
 perl-ExtUtils-MakeMaker  noarch 2:7.76-522.fc44        fedora     739.7 KiB
 perl-ExtUtils-Manifest   noarch 1:1.75-521.fc44        fedora      84.8 KiB
 perl-ExtUtils-ParseXS    noarch 1:3.61-2.fc44          fedora     712.7 KiB
 perl-Fcntl               x86_64 0:1.20-521.fc44        fedora      48.7 KiB
 perl-File-Basename       noarch 0:2.86-521.fc44        fedora      14.0 KiB
 perl-File-Compare        noarch 0:1.100.800-521.fc44   fedora       5.6 KiB
 perl-File-Copy           noarch 0:2.41-521.fc44        fedora      19.7 KiB
 perl-File-Find           noarch 0:1.44-521.fc44        fedora      42.0 KiB
 perl-File-Path           noarch 0:2.18-522.fc44        fedora      63.5 KiB
 perl-File-stat           noarch 0:1.14-521.fc44        fedora      12.5 KiB
 perl-FileHandle          noarch 0:2.05-521.fc44        fedora       9.4 KiB
 perl-Getopt-Std          noarch 0:1.14-521.fc44        fedora      11.2 KiB
 perl-HTTP-Tiny           noarch 0:0.092-2.fc44         fedora     157.6 KiB
 perl-Hash-Util           x86_64 0:0.32-521.fc44        fedora      54.9 KiB
 perl-Hash-Util-FieldHash x86_64 0:1.27-521.fc44        fedora      62.5 KiB
 perl-IO                  x86_64 0:1.55-521.fc44        fedora     147.3 KiB
 perl-IO-Socket-IP        noarch 0:0.43-522.fc44        fedora     100.3 KiB
 perl-IO-Socket-SSL       noarch 0:2.098-2.fc44         fedora     723.5 KiB
 perl-IPC-Open3           noarch 0:1.24-521.fc44        fedora      27.7 KiB
 perl-MIME-Base32         noarch 0:1.303-25.fc44        fedora      30.7 KiB
 perl-MIME-Base64         x86_64 0:3.16-521.fc44        fedora      41.9 KiB
 perl-Net-SSLeay          x86_64 0:1.94-12.fc44         fedora       1.3 MiB
 perl-POSIX               x86_64 0:2.23-521.fc44        fedora     231.2 KiB
 perl-PathTools           x86_64 0:3.94-521.fc44        fedora     179.9 KiB
 perl-Pod-Escapes         noarch 1:1.07-521.fc44        fedora      24.9 KiB
 perl-Pod-Perldoc         noarch 0:3.28.01-522.fc44     fedora     163.7 KiB
 perl-Pod-Simple          noarch 1:3.47-4.fc44          fedora     565.3 KiB
 perl-Pod-Usage           noarch 4:2.05-521.fc44        fedora      86.3 KiB
 perl-Scalar-List-Utils   x86_64 5:1.70-2.fc44          fedora     144.8 KiB
 perl-SelectSaver         noarch 0:1.02-521.fc44        fedora       2.2 KiB
 perl-Socket              x86_64 4:2.040-3.fc44         fedora     120.1 KiB
 perl-Storable            x86_64 1:3.37-522.fc44        fedora     235.1 KiB
 perl-Symbol              noarch 0:1.09-521.fc44        fedora       6.8 KiB
 perl-Term-ANSIColor      noarch 0:5.01-522.fc44        fedora      97.5 KiB
 perl-Term-Cap            noarch 0:1.18-521.fc44        fedora      29.3 KiB
 perl-Test-Harness        noarch 1:3.52-5.fc44          fedora     560.8 KiB
 perl-Text-ParseWords     noarch 0:3.31-521.fc44        fedora      13.6 KiB
 perl-Text-Tabs+Wrap      noarch 0:2024.001-521.fc44    fedora      22.6 KiB
 perl-Thread-Queue        noarch 0:3.14-521.fc44        fedora      28.9 KiB
 perl-Time-HiRes          x86_64 4:1.9778-521.fc44      fedora     115.6 KiB
 perl-Time-Local          noarch 2:1.350-521.fc44       fedora      69.0 KiB
 perl-URI                 noarch 0:5.34-3.fc44          fedora     268.0 KiB
 perl-base                noarch 0:2.27-521.fc44        fedora      12.6 KiB
 perl-constant            noarch 0:1.33-522.fc44        fedora      26.2 KiB
 perl-devel               x86_64 4:5.42.0-521.fc44      fedora       3.8 MiB
 perl-fields              noarch 0:2.27-521.fc44        fedora      11.9 KiB
 perl-if                  noarch 0:0.61.000-521.fc44    fedora       5.8 KiB
 perl-lib                 x86_64 0:0.65-521.fc44        fedora       8.5 KiB
 perl-libnet              noarch 0:3.15-522.fc44        fedora     289.4 KiB
 perl-libs                x86_64 4:5.42.0-521.fc44      fedora      11.6 MiB
 perl-locale              noarch 0:1.13-521.fc44        fedora       6.1 KiB
 perl-mro                 x86_64 0:1.29-521.fc44        fedora      41.5 KiB
 perl-overload            noarch 0:1.40-521.fc44        fedora      71.6 KiB
 perl-overloading         noarch 0:0.02-521.fc44        fedora       4.9 KiB
 perl-parent              noarch 1:0.244-521.fc44       fedora      10.3 KiB
 perl-podlators           noarch 1:6.0.2-521.fc44       fedora     317.5 KiB
 perl-threads             x86_64 1:2.43-521.fc44        fedora     114.9 KiB
 perl-threads-shared      x86_64 0:1.70-521.fc44        fedora      83.5 KiB
 perl-vars                noarch 0:1.05-521.fc44        fedora       3.9 KiB
 perl-version             x86_64 9:0.99.33-522.fc44     fedora     128.6 KiB
 python-pip-wheel         noarch 0:25.3-2.fc44          fedora       1.2 MiB
 python3                  x86_64 0:3.14.2-3.fc44        fedora      28.7 KiB
 python3-libs             x86_64 0:3.14.2-3.fc44        fedora      43.6 MiB
 python3-pyparsing        noarch 0:3.1.2-15.fc44        fedora       1.0 MiB
 systemtap-sdt-devel      x86_64 0:5.4-3.fc44           fedora     184.0 KiB
 systemtap-sdt-dtrace     x86_64 0:5.4-3.fc44           fedora     180.6 KiB
 tzdata                   noarch 0:2025c-2.fc44         fedora       1.2 MiB

Transaction Summary:
 Installing:       122 packages

Total size of inbound packages is 93 MiB. Need to download 93 MiB.
After this operation, 293 MiB extra will be used (install 293 MiB, remove 0 B).
[  1/122] automake-0:1.18.1-4.fc44.noar 100% |  41.6 MiB/s | 723.6 KiB |  00m00s
[  2/122] autoconf-0:2.72-10.fc44.noarc 100% |  42.7 MiB/s | 830.9 KiB |  00m00s
[  3/122] make-1:4.4.1-12.fc44.x86_64   100% | 191.6 MiB/s | 588.7 KiB |  00m00s
[  4/122] perl-File-Temp-1:0.231.200-2. 100% |  58.2 MiB/s |  59.6 KiB |  00m00s
[  5/122] perl-FindBin-0:1.54-521.fc44. 100% |   4.5 MiB/s |  13.9 KiB |  00m00s
[  6/122] perl-Getopt-Long-1:2.58-521.f 100% |  62.1 MiB/s |  63.6 KiB |  00m00s
[  7/122] perl-interpreter-4:5.42.0-521 100% |  70.3 MiB/s |  72.0 KiB |  00m00s
[  8/122] perl-ExtUtils-Embed-0:1.35-52 100% | 234.3 KiB/s |  17.3 KiB |  00m00s
[  9/122] htslib-devel-0:1.23-1.fc44.x8 100% |  10.4 MiB/s | 106.9 KiB |  00m00s
[ 10/122] htslib-tools-0:1.23-1.fc44.x8 100% |  97.8 MiB/s | 801.1 KiB |  00m00s
[ 11/122] zlib-ng-compat-devel-0:2.3.2- 100% |  18.6 MiB/s |  38.0 KiB |  00m00s
[ 12/122] emacs-filesystem-1:30.2-2.fc4 100% |   3.9 MiB/s |   8.0 KiB |  00m00s
[ 13/122] m4-0:1.4.20-3.fc44.x86_64     100% | 109.6 MiB/s | 336.6 KiB |  00m00s
[ 14/122] perl-Carp-0:1.54-521.fc44.noa 100% |  14.1 MiB/s |  28.8 KiB |  00m00s
[ 15/122] perl-Class-Struct-0:0.68-521. 100% |   7.1 MiB/s |  21.7 KiB |  00m00s
[ 16/122] perl-Data-Dumper-0:2.191-522. 100% |  27.6 MiB/s |  56.5 KiB |  00m00s
[ 17/122] perl-Errno-0:1.38-521.fc44.x8 100% |  14.2 MiB/s |  14.6 KiB |  00m00s
[ 18/122] gcc-0:16.0.1-0.3.fc44.1.x86_6 100% | 254.2 MiB/s |  43.0 MiB |  00m00s
[ 19/122] perl-Exporter-0:5.79-521.fc44 100% | 811.0 KiB/s |  30.8 KiB |  00m00s
[ 20/122] perl-File-Basename-0:2.86-521 100% |   8.2 MiB/s |  16.8 KiB |  00m00s
[ 21/122] perl-File-Compare-0:1.100.800 100% |   6.3 MiB/s |  12.9 KiB |  00m00s
[ 22/122] perl-File-Copy-0:2.41-521.fc4 100% |   9.7 MiB/s |  19.8 KiB |  00m00s
[ 23/122] perl-File-Find-0:1.44-521.fc4 100% |  12.2 MiB/s |  25.0 KiB |  00m00s
[ 24/122] perl-File-stat-0:1.14-521.fc4 100% |   8.2 MiB/s |  16.7 KiB |  00m00s
[ 25/122] perl-IO-0:1.55-521.fc44.x86_6 100% |  40.0 MiB/s |  81.8 KiB |  00m00s
[ 26/122] perl-POSIX-0:2.23-521.fc44.x8 100% |  47.7 MiB/s |  97.6 KiB |  00m00s
[ 27/122] perl-PathTools-0:3.94-521.fc4 100% |  42.6 MiB/s |  87.3 KiB |  00m00s
[ 28/122] perl-Text-ParseWords-0:3.31-5 100% |   8.0 MiB/s |  16.5 KiB |  00m00s
[ 29/122] perl-constant-0:1.33-522.fc44 100% |  11.2 MiB/s |  22.9 KiB |  00m00s
[ 30/122] perl-File-Path-0:2.18-522.fc4 100% |  17.2 MiB/s |  35.3 KiB |  00m00s
[ 31/122] perl-Thread-Queue-0:3.14-521. 100% |  10.4 MiB/s |  21.3 KiB |  00m00s
[ 32/122] perl-threads-1:2.43-521.fc44. 100% |  28.4 MiB/s |  58.2 KiB |  00m00s
[ 33/122] libmpc-0:1.3.1-9.fc44.x86_64  100% |   6.4 MiB/s |  72.1 KiB |  00m00s
[ 34/122] perl-Fcntl-0:1.20-521.fc44.x8 100% |   4.1 MiB/s |  29.3 KiB |  00m00s
[ 35/122] gsl-devel-0:2.8-3.fc44.x86_64 100% |   3.6 MiB/s | 655.2 KiB |  00m00s
[ 36/122] perl-Scalar-List-Utils-5:1.70 100% |  14.7 MiB/s |  75.4 KiB |  00m00s
[ 37/122] perl-overload-0:1.40-521.fc44 100% |   6.3 MiB/s |  45.2 KiB |  00m00s
[ 38/122] perl-parent-1:0.244-521.fc44. 100% |   2.4 MiB/s |  14.9 KiB |  00m00s
[ 39/122] perl-Pod-Usage-4:2.05-521.fc4 100% |   9.9 MiB/s |  40.7 KiB |  00m00s
[ 40/122] cpp-0:16.0.1-0.3.fc44.1.x86_6 100% | 294.8 MiB/s |  14.4 MiB |  00m00s
[ 41/122] perl-base-0:2.27-521.fc44.noa 100% |   1.0 MiB/s |  15.9 KiB |  00m00s
[ 42/122] perl-libs-4:5.42.0-521.fc44.x 100% | 143.1 MiB/s |   2.6 MiB |  00m00s
[ 43/122] cmake-filesystem-0:3.31.10-5. 100% |   6.9 MiB/s |  14.1 KiB |  00m00s
[ 44/122] htslib-0:1.23-1.fc44.x86_64   100% |  60.4 MiB/s | 618.7 KiB |  00m00s
[ 45/122] perl-B-0:1.89-521.fc44.x86_64 100% |  86.7 MiB/s | 177.6 KiB |  00m00s
[ 46/122] perl-Symbol-0:1.09-521.fc44.n 100% |   6.8 MiB/s |  13.9 KiB |  00m00s
[ 47/122] perl-SelectSaver-0:1.02-521.f 100% |   5.6 MiB/s |  11.4 KiB |  00m00s
[ 48/122] perl-Socket-4:2.040-3.fc44.x8 100% |  18.0 MiB/s |  55.3 KiB |  00m00s
[ 49/122] perl-locale-0:1.13-521.fc44.n 100% |   4.3 MiB/s |  13.2 KiB |  00m00s
[ 50/122] gsl-0:2.8-3.fc44.x86_64       100% |  67.1 MiB/s |   1.2 MiB |  00m00s
[ 51/122] perl-vars-0:1.05-521.fc44.noa 100% |   6.2 MiB/s |  12.6 KiB |  00m00s
[ 52/122] perl-threads-shared-0:1.70-52 100% |  22.1 MiB/s |  45.2 KiB |  00m00s
[ 53/122] perl-mro-0:1.29-521.fc44.x86_ 100% |  14.4 MiB/s |  29.5 KiB |  00m00s
[ 54/122] perl-overloading-0:0.02-521.f 100% |   6.1 MiB/s |  12.6 KiB |  00m00s
[ 55/122] perl-Pod-Perldoc-0:3.28.01-52 100% |  42.0 MiB/s |  86.1 KiB |  00m00s
[ 56/122] perl-podlators-1:6.0.2-521.fc 100% | 125.5 MiB/s | 128.5 KiB |  00m00s
[ 57/122] perl-DynaLoader-0:1.57-521.fc 100% |  12.5 MiB/s |  25.7 KiB |  00m00s
[ 58/122] perl-if-0:0.61.000-521.fc44.n 100% |   6.7 MiB/s |  13.7 KiB |  00m00s
[ 59/122] groff-base-0:1.23.0-12.fc44.x 100% | 280.8 MiB/s |   1.1 MiB |  00m00s
[ 60/122] perl-HTTP-Tiny-0:0.092-2.fc44 100% |  18.6 MiB/s |  57.2 KiB |  00m00s
[ 61/122] perl-IPC-Open3-0:1.24-521.fc4 100% |   7.7 MiB/s |  23.6 KiB |  00m00s
[ 62/122] perl-Pod-Simple-1:3.47-4.fc44 100% | 107.4 MiB/s | 220.0 KiB |  00m00s
[ 63/122] perl-Term-ANSIColor-0:5.01-52 100% |  23.3 MiB/s |  47.7 KiB |  00m00s
[ 64/122] perl-Term-Cap-0:1.18-521.fc44 100% |  10.7 MiB/s |  22.0 KiB |  00m00s
[ 65/122] perl-IO-Socket-SSL-0:2.098-2. 100% | 229.2 MiB/s | 234.7 KiB |  00m00s
[ 66/122] perl-MIME-Base64-0:3.16-521.f 100% |  14.5 MiB/s |  29.8 KiB |  00m00s
[ 67/122] perl-Net-SSLeay-0:1.94-12.fc4 100% | 121.6 MiB/s | 373.4 KiB |  00m00s
[ 68/122] perl-Time-HiRes-4:1.9778-521. 100% |  55.9 MiB/s |  57.2 KiB |  00m00s
[ 69/122] perl-Time-Local-2:1.350-521.f 100% |  33.7 MiB/s |  34.5 KiB |  00m00s
[ 70/122] perl-Pod-Escapes-1:1.07-521.f 100% |  19.3 MiB/s |  19.8 KiB |  00m00s
[ 71/122] perl-Text-Tabs+Wrap-0:2024.00 100% |  21.2 MiB/s |  21.8 KiB |  00m00s
[ 72/122] ncurses-0:6.5-9.20250614.fc44 100% | 139.2 MiB/s | 427.6 KiB |  00m00s
[ 73/122] perl-IO-Socket-IP-0:0.43-522. 100% |  20.6 MiB/s |  42.2 KiB |  00m00s
[ 74/122] perl-URI-0:5.34-3.fc44.noarch 100% |  48.6 MiB/s | 149.2 KiB |  00m00s
[ 75/122] perl-AutoLoader-0:5.74-521.fc 100% |  20.4 MiB/s |  20.9 KiB |  00m00s
[ 76/122] perl-MIME-Base32-0:1.303-25.f 100% |  20.0 MiB/s |  20.5 KiB |  00m00s
[ 77/122] perl-libnet-0:3.15-522.fc44.n 100% | 125.4 MiB/s | 128.4 KiB |  00m00s
[ 78/122] perl-Digest-MD5-0:2.59-521.fc 100% |  17.6 MiB/s |  36.0 KiB |  00m00s
[ 79/122] perl-FileHandle-0:2.05-521.fc 100% |  14.8 MiB/s |  15.2 KiB |  00m00s
[ 80/122] perl-Digest-0:1.20-521.fc44.n 100% |  24.3 MiB/s |  24.9 KiB |  00m00s
[ 81/122] perl-Encode-4:3.21-521.fc44.x 100% | 263.0 MiB/s |   1.1 MiB |  00m00s
[ 82/122] perl-Storable-1:3.37-522.fc44 100% |  32.8 MiB/s | 100.9 KiB |  00m00s
[ 83/122] perl-Getopt-Std-0:1.14-521.fc 100% |   3.0 MiB/s |  15.3 KiB |  00m00s
[ 84/122] libxcrypt-devel-0:4.5.2-3.fc4 100% |  14.7 MiB/s |  30.0 KiB |  00m00s
[ 85/122] perl-ExtUtils-Constant-0:0.25 100% |  14.2 MiB/s |  43.5 KiB |  00m00s
[ 86/122] perl-devel-4:5.42.0-521.fc44. 100% |  38.1 MiB/s | 662.7 KiB |  00m00s
[ 87/122] perl-ExtUtils-ParseXS-1:3.61- 100% |  31.8 MiB/s | 292.6 KiB |  00m00s
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--------------------------------------------------------------------------------
[122/122] Total                         100% | 169.8 MiB/s |  93.2 MiB |  00m01s
Running transaction
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Warning: skipped OpenPGP checks for 3 packages from repository: copr_base
Complete!
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.fc44.src.rpm
Updating and loading repositories:
 Copr repository                        100% |  79.9 KiB/s |   1.5 KiB |  00m00s
 fedora                                 100% | 329.9 KiB/s |  26.4 KiB |  00m00s
Repositories loaded.
Nothing to do.
Package "autoconf-2.72-10.fc44.noarch" is already installed.
Package "automake-1.18.1-4.fc44.noarch" is already installed.
Package "gcc-16.0.1-0.3.fc44.1.x86_64" is already installed.
Package "gsl-devel-2.8-3.fc44.x86_64" is already installed.
Package "htslib-devel-1.23-1.fc44.x86_64" is already installed.
Package "htslib-tools-1.23-1.fc44.x86_64" is already installed.
Package "make-1:4.4.1-12.fc44.x86_64" is already installed.
Package "perl-ExtUtils-Embed-1.35-521.fc44.noarch" is already installed.
Package "perl-File-Temp-1:0.231.200-2.fc44.noarch" is already installed.
Package "perl-FindBin-1.54-521.fc44.noarch" is already installed.
Package "perl-Getopt-Long-1:2.58-521.fc44.noarch" is already installed.
Package "perl-interpreter-4:5.42.0-521.fc44.x86_64" is already installed.
Package "zlib-ng-compat-devel-2.3.2-3.fc44.x86_64" is already installed.

Finish: build setup for bcftools-1.23-1.fc44.src.rpm
Start: rpmbuild bcftools-1.23-1.fc44.src.rpm
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1769040000
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.HlGXUv
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.5ukCjL
+ umask 022
+ cd /builddir/build/BUILD/bcftools-1.23-build
+ cd /builddir/build/BUILD/bcftools-1.23-build
+ rm -rf bcftools-1.23
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/bcftools-1.23.tar.bz2
+ 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 -f -p1 --fuzz=0
patching file configure.ac
+ 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
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.JVZa21
+ umask 022
+ cd /builddir/build/BUILD/bcftools-1.23-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules  '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules  '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd bcftools-1.23
+ autoreconf -fiv
autoreconf: export WARNINGS=
autoreconf: Entering directory '.'
autoreconf: configure.ac: not using Gettext
autoreconf: running: aclocal --force 
autoreconf: configure.ac: tracing
autoreconf: configure.ac: subdirectory $HTSDIR not present
autoreconf: configure.ac: not using Libtool
autoreconf: configure.ac: not using Intltool
autoreconf: configure.ac: not using Gtkdoc
autoreconf: configure.ac: not needing autopoint
autoreconf: running: /usr/bin/autoconf --force
configure.ac:94: warning: _AC_CONFIG_SUBDIRS: you should use literals
./lib/autoconf/status.m4:1096: 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
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,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules  '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules  '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']'
++ find . -type f -name configure -print
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup '/lt_cv_sys_global_symbol_to_cdecl=/s#(".*"|'\''.*'\'')#"sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./htslib-1.23/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};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed -r --in-place=.backup '/lt_cv_sys_global_symbol_to_cdecl=/s#(".*"|'\''.*'\'')#"sed -n -e '\''s/^T .* \\(.*\\)$/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
+ '[' 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 $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./htslib-1.23/config.sub
+ '[' -f /usr/lib/rpm/redhat/config.sub ']'
+ /usr/bin/rm -f ./htslib-1.23/config.sub
++ basename ./htslib-1.23/config.sub
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./htslib-1.23/config.sub
'/usr/lib/rpm/redhat/config.sub' -> './htslib-1.23/config.sub'
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors' ']'
++ find . -name ltmain.sh
++ grep -q runstatedir=DIR ./configure
++ echo --runstatedir=/run
+ ./configure --build=x86_64-redhat-linux --host=x86_64-redhat-linux --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/bin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --runstatedir=/run --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  ' --prefix=/usr --with-htslib=system --enable-perl-filters --enable-libgsl '--with-bcf-plugin-path=/usr/local/libexec/bcftools:$(plugindir)'
checking for x86_64-redhat-linux-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for C compiler warning flags... -Wall
checking for gcc option to enable large file support... none needed
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 -j4 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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o tabix.o tabix.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfindex.o vcfindex.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfisec.o vcfisec.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfquery.o vcfquery.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcffilter.o vcffilter.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfstats.o vcfstats.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfsom.o vcfsom.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfgtcheck.o vcfgtcheck.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfview.o vcfview.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfmerge.o vcfmerge.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfnorm.o vcfnorm.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfroh.o vcfroh.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfconcat.o vcfconcat.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcmp.o vcmp.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o gvcf.o gvcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfcall.o vcfcall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfannotate.o vcfannotate.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o mcall.o mcall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o tsv2vcf.o tsv2vcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o reheader.o reheader.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfhead.o vcfhead.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o HMM.o HMM.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfcnv.o vcfcnv.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o ploidy.o ploidy.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfconvert.o vcfconvert.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o bin.o bin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o hclust.o hclust.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o version.o version.c
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o convert.o convert.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o smpl_ilist.o smpl_ilist.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o consensus.o consensus.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o regidx.o regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfbuf.o vcfbuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o mpileup.o mpileup.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o bam2bcf.o bam2bcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o bam2bcf_iaux.o bam2bcf_iaux.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o bam2bcf_indel.o bam2bcf_indel.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o read_consensus.o read_consensus.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o bam2bcf_edlib.o bam2bcf_edlib.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o bam_sample.o bam_sample.c
bam_sample.c: In function ‘bam_smpl_add_bam’:
bam_sample.c:172:21: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  172 |         char *eol = strchr(q + 3, '\n');
      |                     ^~~~~~
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o cols.o cols.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o dist.o dist.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o extsort.o extsort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o vcfsort.o vcfsort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o em.o em.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o ccall.o ccall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o csq.o csq.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o kmin.o kmin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o str_finder.o str_finder.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o abuf.o abuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o edlib.o edlib.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o prob1.o prob1.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o mpileup2/mpileup.o mpileup2/mpileup.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o peakfit.o peakfit.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o polysomy.o polysomy.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o gff.o gff.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -c -o test/test-regidx.o test/test-regidx.c
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/GTsubset.so version.c plugins/GTsubset.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/add-variantkey.so version.c plugins/add-variantkey.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/GTisec.so version.c plugins/GTisec.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/allele-length.so version.c plugins/allele-length.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/af-dist.so bin.c version.c plugins/af-dist.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/check-ploidy.so version.c plugins/check-ploidy.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/check-sparsity.so version.c plugins/check-sparsity.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/counts.so version.c plugins/counts.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/contrast.so version.c plugins/contrast.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/fill-AN-AC.so version.c plugins/fill-AN-AC.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/color-chrs.so HMM.c version.c plugins/color-chrs.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/dosage.so version.c plugins/dosage.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/ad-bias.so convert.c version.c plugins/ad-bias.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/fixploidy.so ploidy.c regidx.c version.c plugins/fixploidy.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/fill-tags.so version.c plugins/fill-tags.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/frameshifts.so version.c plugins/frameshifts.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/gvcfz.so version.c plugins/gvcfz.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/fixref.so version.c plugins/fixref.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/guess-ploidy.so version.c plugins/guess-ploidy.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/impute-info.so version.c plugins/impute-info.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/isecGT.so smpl_ilist.c version.c plugins/isecGT.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/indel-stats.so version.c plugins/indel-stats.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/missing2ref.so version.c plugins/missing2ref.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/mendelian2.so version.c plugins/mendelian2.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/parental-origin.so version.c plugins/parental-origin.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/prune.so version.c plugins/prune.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/remove-overlaps.so version.c plugins/remove-overlaps.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/scatter.so version.c plugins/scatter.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/setGT.so version.c plugins/setGT.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/smpl-stats.so version.c plugins/smpl-stats.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/fill-from-fasta.so filter.c version.c plugins/fill-from-fasta.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/tag2tag.so version.c plugins/tag2tag.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/split.so version.c plugins/split.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/trio-switch-rate.so version.c plugins/trio-switch-rate.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/trio-stats.so version.c plugins/trio-stats.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/variant-distance.so version.c plugins/variant-distance.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/split-vep.so version.c plugins/split-vep.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/variantkey-hex.so version.c plugins/variantkey-hex.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/trio-dnm2.so version.c plugins/trio-dnm2.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o test/test-rbuf test/test-rbuf.o -lz  
gcc  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -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 -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/vrfs.so version.c plugins/vrfs.c  
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -o plugins/vcf2table.so version.c plugins/vcf2table.c 
version.c: In function ‘init_index2’:
version.c:163:19: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
  163 |     char *delim = strstr(fname, HTS_IDX_DELIM);
      |                   ^~~~~~
plugins/vcf2table.c: In function ‘process’:
plugins/vcf2table.c:1066:18: warning: initialization discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
 1066 |       char* eq = strchr(info, '=');
      |                  ^~~~~~
gcc -rdynamic  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes   -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,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -fstack-protector-strong -L/usr/local/lib -L/usr/lib64/perl5/CORE -lperl -lpthread -lresolv -ldl -lm -lcrypt -lutil -lc -lpthread
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.2hbgan
+ umask 022
+ cd /builddir/build/BUILD/bcftools-1.23-build
+ '[' /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT '!=' / ']'
+ rm -rf /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT
++ dirname /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT
+ mkdir -p /builddir/build/BUILD/bcftools-1.23-build
+ mkdir /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules  '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules  '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd bcftools-1.23
+ /usr/bin/make install DESTDIR=/builddir/build/BUILD/bcftools-1.23-build/BUILDROOT 'INSTALL=/usr/bin/install -p'
mkdir -p -m 755 /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/bin /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/man/man1 /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/libexec/bcftools
/usr/bin/install -p bcftools /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/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/BUILD/bcftools-1.23-build/BUILDROOT/usr/bin
/usr/bin/install -p -m 644 doc/bcftools.1 /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/man/man1
/usr/bin/install -p plugins/*.so /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/libexec/bcftools
+ /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 1.23-1.fc44 --unique-debug-suffix -1.23-1.fc44.x86_64 --unique-debug-src-base bcftools-1.23-1.fc44.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23
find-debuginfo: starting
Extracting debug info from 42 files
DWARF-compressing 42 files
sepdebugcrcfix: Updated 42 CRC32s, 0 CRC32s did match.
Creating .debug symlinks for symlinks to ELF files
Copying sources found by 'debugedit -l' to /usr/src/debug/bcftools-1.23-1.fc44.x86_64
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ COMPRESS='gzip -9 -n'
+ COMPRESS_EXT=.gz
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /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
+ /usr/lib/rpm/brp-remove-la-files
+ /usr/lib/rpm/redhat/brp-python-rpm-in-distinfo
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j4
+ /usr/lib/rpm/redhat/brp-python-hardlink
+ /usr/bin/add-det --brp -j4 /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT
Scanned 20 directories and 231 files,
    processed 1 inodes,
    0 modified (0 replaced + 0 rewritten),
    0 unsupported format, 0 errors
+ /usr/bin/linkdupes --brp /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr
Scanned 19 directories and 231 files,
    considered 231 files, read 6 files, linked 0 files, 0 errors
    sum of sizes of linked files: 0 bytes
Reading /builddir/build/BUILD/bcftools-1.23-build/SPECPARTS/rpm-debuginfo.specpart
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.3LxAQn
+ umask 022
+ cd /builddir/build/BUILD/bcftools-1.23-build
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer  '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules  '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules  '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd bcftools-1.23
+ ldd bcftools
+ grep -E '/lib(64)?/libhts\.so\.'
	libhts.so.3 => /lib64/libhts.so.3 (0x00007f789d237000)
+ 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/q7C7bnUCl5/merge.a.vcf.gz 2:3199812-3199812
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/merge.a.bcf 2:3199812-3199812
.. ok

test_tabix:
	tabix /tmp/q7C7bnUCl5/merge.a.vcf.gz 1:3000151-3000151
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/merge.a.bcf 1:3000151-3000151
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/q7C7bnUCl5/large_chrom_csi_limit.bcf chr20
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/q7C7bnUCl5/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/q7C7bnUCl5/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/q7C7bnUCl5/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/idx.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/idx.bcf.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/q7C7bnUCl5/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/q7C7bnUCl5/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/q7C7bnUCl5/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/empty.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/q7C7bnUCl5/empty.bcf.csi
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools stats -s - /tmp/q7C7bnUCl5/check.vcf.gz | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/misc/plot-vcfstats -m /tmp/q7C7bnUCl5/check.1.chk /tmp/q7C7bnUCl5/check.2.chk /tmp/q7C7bnUCl5/check.3.chk /tmp/q7C7bnUCl5/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-build/bcftools-1.23/bcftools stats -s -  /tmp/q7C7bnUCl5/stats.a.vcf.gz /tmp/q7C7bnUCl5/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools stats -s B  /tmp/q7C7bnUCl5/stats.a.vcf.gz /tmp/q7C7bnUCl5/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools stats -s -  /tmp/q7C7bnUCl5/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools stats -s - -i 'type="snp"'  /tmp/q7C7bnUCl5/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools stats -s -  /tmp/q7C7bnUCl5/stats.vaf.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -n =2 -w 2 --no-version /tmp/q7C7bnUCl5/isec.match-id.1.1.vcf.gz /tmp/q7C7bnUCl5/isec.match-id.1.2.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -n =2 -w 2 -c id --no-version /tmp/q7C7bnUCl5/isec.match-id.1.1.vcf.gz /tmp/q7C7bnUCl5/isec.match-id.1.2.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -n =2 /tmp/q7C7bnUCl5/isec.a.vcf.gz /tmp/q7C7bnUCl5/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -n =2 -i"STRLEN(REF)==2" /tmp/q7C7bnUCl5/isec.a.vcf.gz /tmp/q7C7bnUCl5/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -n =2 -c both /tmp/q7C7bnUCl5/isec.a.vcf.gz /tmp/q7C7bnUCl5/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -n =2 -c any /tmp/q7C7bnUCl5/isec.a.vcf.gz /tmp/q7C7bnUCl5/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -C -c any /tmp/q7C7bnUCl5/isec.a.vcf.gz /tmp/q7C7bnUCl5/isec.b.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec --no-version   -T /tmp/q7C7bnUCl5/isec.tab.gz /tmp/q7C7bnUCl5/isec.a.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -Ob  -T /tmp/q7C7bnUCl5/isec.tab.gz /tmp/q7C7bnUCl5/isec.a.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/q7C7bnUCl5/isec-miss.1.1.vcf.gz /tmp/q7C7bnUCl5/isec-miss.1.2.vcf.gz /tmp/q7C7bnUCl5/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -R /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/isec-miss.1.regs.txt -n +1 /tmp/q7C7bnUCl5/isec-miss.1.1.vcf.gz /tmp/q7C7bnUCl5/isec-miss.1.2.vcf.gz /tmp/q7C7bnUCl5/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/q7C7bnUCl5/isec-miss.2.1.vcf.gz /tmp/q7C7bnUCl5/isec-miss.2.2.vcf.gz /tmp/q7C7bnUCl5/isec-miss.2.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -R /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/isec-miss.1.regs.txt -n +1 /tmp/q7C7bnUCl5/isec-miss.2.1.vcf.gz /tmp/q7C7bnUCl5/isec-miss.2.2.vcf.gz /tmp/q7C7bnUCl5/isec-miss.2.3.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.broken-gvcf.a.vcf.gz /tmp/q7C7bnUCl5/merge.broken-gvcf.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.broken-gvcf.a.vcf.gz /tmp/q7C7bnUCl5/merge.broken-gvcf.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.broken-gvcf.a.bcf /tmp/q7C7bnUCl5/merge.broken-gvcf.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.broken-gvcf.a.bcf /tmp/q7C7bnUCl5/merge.broken-gvcf.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.symbolic.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.symbolic.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.symbolic.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.symbolic.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.symbolic.1.a.bcf /tmp/q7C7bnUCl5/merge.symbolic.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.symbolic.1.a.bcf /tmp/q7C7bnUCl5/merge.symbolic.1.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --merge none /tmp/q7C7bnUCl5/merge.multiallelics.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.multiallelics.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/q7C7bnUCl5/merge.multiallelics.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.multiallelics.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --merge none /tmp/q7C7bnUCl5/merge.multiallelics.1.a.bcf /tmp/q7C7bnUCl5/merge.multiallelics.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/q7C7bnUCl5/merge.multiallelics.1.a.bcf /tmp/q7C7bnUCl5/merge.multiallelics.1.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --merge both /tmp/q7C7bnUCl5/merge.multiallelics.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.multiallelics.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/q7C7bnUCl5/merge.multiallelics.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.multiallelics.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --merge both /tmp/q7C7bnUCl5/merge.multiallelics.1.a.bcf /tmp/q7C7bnUCl5/merge.multiallelics.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/q7C7bnUCl5/merge.multiallelics.1.a.bcf /tmp/q7C7bnUCl5/merge.multiallelics.1.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --merge none /tmp/q7C7bnUCl5/merge.12.a.vcf.gz /tmp/q7C7bnUCl5/merge.12.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/q7C7bnUCl5/merge.12.a.vcf.gz /tmp/q7C7bnUCl5/merge.12.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --merge none /tmp/q7C7bnUCl5/merge.12.a.bcf /tmp/q7C7bnUCl5/merge.12.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/q7C7bnUCl5/merge.12.a.bcf /tmp/q7C7bnUCl5/merge.12.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --merge both /tmp/q7C7bnUCl5/merge.12.a.vcf.gz /tmp/q7C7bnUCl5/merge.12.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/q7C7bnUCl5/merge.12.a.vcf.gz /tmp/q7C7bnUCl5/merge.12.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --merge both /tmp/q7C7bnUCl5/merge.12.a.bcf /tmp/q7C7bnUCl5/merge.12.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/q7C7bnUCl5/merge.12.a.bcf /tmp/q7C7bnUCl5/merge.12.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.phased.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.phased.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.phased.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.phased.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.phased.1.a.bcf /tmp/q7C7bnUCl5/merge.phased.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.phased.1.a.bcf /tmp/q7C7bnUCl5/merge.phased.1.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.11.a.vcf.gz /tmp/q7C7bnUCl5/merge.11.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.11.a.vcf.gz /tmp/q7C7bnUCl5/merge.11.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.11.a.bcf /tmp/q7C7bnUCl5/merge.11.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.11.a.bcf /tmp/q7C7bnUCl5/merge.11.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -i AF:join /tmp/q7C7bnUCl5/merge.join.a.vcf.gz /tmp/q7C7bnUCl5/merge.join.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -i AF:join /tmp/q7C7bnUCl5/merge.join.a.vcf.gz /tmp/q7C7bnUCl5/merge.join.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -i AF:join /tmp/q7C7bnUCl5/merge.join.a.bcf /tmp/q7C7bnUCl5/merge.join.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -i AF:join /tmp/q7C7bnUCl5/merge.join.a.bcf /tmp/q7C7bnUCl5/merge.join.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-single /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-single /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-single /tmp/q7C7bnUCl5/merge.LPL.a.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-single /tmp/q7C7bnUCl5/merge.LPL.a.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 1 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 1 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 2 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 2 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 3 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 3 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 4 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 4 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 5 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/q7C7bnUCl5/merge.LPL.a.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.b.vcf.gz /tmp/q7C7bnUCl5/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -L 5 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/q7C7bnUCl5/merge.LPL.a.bcf /tmp/q7C7bnUCl5/merge.LPL.b.bcf /tmp/q7C7bnUCl5/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/q7C7bnUCl5/merge.a.vcf.gz /tmp/q7C7bnUCl5/merge.b.vcf.gz /tmp/q7C7bnUCl5/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/q7C7bnUCl5/merge.a.vcf.gz /tmp/q7C7bnUCl5/merge.b.vcf.gz /tmp/q7C7bnUCl5/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/q7C7bnUCl5/merge.a.bcf /tmp/q7C7bnUCl5/merge.b.bcf /tmp/q7C7bnUCl5/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/q7C7bnUCl5/merge.a.bcf /tmp/q7C7bnUCl5/merge.b.bcf /tmp/q7C7bnUCl5/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -Fx /tmp/q7C7bnUCl5/merge.a.vcf.gz /tmp/q7C7bnUCl5/merge.b.vcf.gz /tmp/q7C7bnUCl5/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -Fx /tmp/q7C7bnUCl5/merge.a.vcf.gz /tmp/q7C7bnUCl5/merge.b.vcf.gz /tmp/q7C7bnUCl5/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -Fx /tmp/q7C7bnUCl5/merge.a.bcf /tmp/q7C7bnUCl5/merge.b.bcf /tmp/q7C7bnUCl5/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -Fx /tmp/q7C7bnUCl5/merge.a.bcf /tmp/q7C7bnUCl5/merge.b.bcf /tmp/q7C7bnUCl5/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -0 /tmp/q7C7bnUCl5/merge.a.vcf.gz /tmp/q7C7bnUCl5/merge.b.vcf.gz /tmp/q7C7bnUCl5/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -0 /tmp/q7C7bnUCl5/merge.a.vcf.gz /tmp/q7C7bnUCl5/merge.b.vcf.gz /tmp/q7C7bnUCl5/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -0 /tmp/q7C7bnUCl5/merge.a.bcf /tmp/q7C7bnUCl5/merge.b.bcf /tmp/q7C7bnUCl5/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -0 /tmp/q7C7bnUCl5/merge.a.bcf /tmp/q7C7bnUCl5/merge.b.bcf /tmp/q7C7bnUCl5/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -m none /tmp/q7C7bnUCl5/merge.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m none /tmp/q7C7bnUCl5/merge.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -m none /tmp/q7C7bnUCl5/merge.2.a.bcf /tmp/q7C7bnUCl5/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m none /tmp/q7C7bnUCl5/merge.2.a.bcf /tmp/q7C7bnUCl5/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -m both /tmp/q7C7bnUCl5/merge.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m both /tmp/q7C7bnUCl5/merge.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -m both /tmp/q7C7bnUCl5/merge.2.a.bcf /tmp/q7C7bnUCl5/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m both /tmp/q7C7bnUCl5/merge.2.a.bcf /tmp/q7C7bnUCl5/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -m all /tmp/q7C7bnUCl5/merge.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m all /tmp/q7C7bnUCl5/merge.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -m all /tmp/q7C7bnUCl5/merge.2.a.bcf /tmp/q7C7bnUCl5/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m all /tmp/q7C7bnUCl5/merge.2.a.bcf /tmp/q7C7bnUCl5/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/q7C7bnUCl5/merge.3.a.vcf.gz /tmp/q7C7bnUCl5/merge.3.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/q7C7bnUCl5/merge.3.a.vcf.gz /tmp/q7C7bnUCl5/merge.3.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/q7C7bnUCl5/merge.3.a.bcf /tmp/q7C7bnUCl5/merge.3.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/q7C7bnUCl5/merge.3.a.bcf /tmp/q7C7bnUCl5/merge.3.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -m id /tmp/q7C7bnUCl5/merge.4.a.vcf.gz /tmp/q7C7bnUCl5/merge.4.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m id /tmp/q7C7bnUCl5/merge.4.a.vcf.gz /tmp/q7C7bnUCl5/merge.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples -m id /tmp/q7C7bnUCl5/merge.4.a.bcf /tmp/q7C7bnUCl5/merge.4.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m id /tmp/q7C7bnUCl5/merge.4.a.bcf /tmp/q7C7bnUCl5/merge.4.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/gvcf.merge.1.vcf.gz /tmp/q7C7bnUCl5/gvcf.merge.2.vcf.gz /tmp/q7C7bnUCl5/gvcf.merge.3.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/gvcf.merge.1.vcf.gz /tmp/q7C7bnUCl5/gvcf.merge.2.vcf.gz /tmp/q7C7bnUCl5/gvcf.merge.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/gvcf.merge.1.bcf /tmp/q7C7bnUCl5/gvcf.merge.2.bcf /tmp/q7C7bnUCl5/gvcf.merge.3.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/gvcf.merge.1.bcf /tmp/q7C7bnUCl5/gvcf.merge.2.bcf /tmp/q7C7bnUCl5/gvcf.merge.3.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - -m both,* /tmp/q7C7bnUCl5/merge.gvcf.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -m both,* /tmp/q7C7bnUCl5/merge.gvcf.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - -m both,** /tmp/q7C7bnUCl5/merge.gvcf.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -m both,** /tmp/q7C7bnUCl5/merge.gvcf.2.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - -i SRC:join /tmp/q7C7bnUCl5/merge.gvcf.3.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.3.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -i SRC:join /tmp/q7C7bnUCl5/merge.gvcf.3.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.3.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.4.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.4.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.4.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.4.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.4.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.4.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.4.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.5.a.vcf.gz /tmp/q7C7bnUCl5/merge.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.5.a.vcf.gz /tmp/q7C7bnUCl5/merge.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.5.a.bcf /tmp/q7C7bnUCl5/merge.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.5.a.bcf /tmp/q7C7bnUCl5/merge.5.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.6.a.vcf.gz /tmp/q7C7bnUCl5/merge.6.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.6.a.vcf.gz /tmp/q7C7bnUCl5/merge.6.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.6.a.bcf /tmp/q7C7bnUCl5/merge.6.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.6.a.bcf /tmp/q7C7bnUCl5/merge.6.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.7.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.7.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.7.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.7.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.7.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.7.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.7.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.7.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.8.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.8.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.8.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.8.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.8.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/q7C7bnUCl5/merge.7.a.vcf.gz /tmp/q7C7bnUCl5/merge.7.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/q7C7bnUCl5/merge.7.a.vcf.gz /tmp/q7C7bnUCl5/merge.7.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/q7C7bnUCl5/merge.7.a.bcf /tmp/q7C7bnUCl5/merge.7.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/q7C7bnUCl5/merge.7.a.bcf /tmp/q7C7bnUCl5/merge.7.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/merge.gvcf.9a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9c.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9d.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/merge.gvcf.9a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9c.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9d.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/merge.gvcf.9a.bcf /tmp/q7C7bnUCl5/merge.gvcf.9b.bcf /tmp/q7C7bnUCl5/merge.gvcf.9c.bcf /tmp/q7C7bnUCl5/merge.gvcf.9d.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/merge.gvcf.9a.bcf /tmp/q7C7bnUCl5/merge.gvcf.9b.bcf /tmp/q7C7bnUCl5/merge.gvcf.9c.bcf /tmp/q7C7bnUCl5/merge.gvcf.9d.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/q7C7bnUCl5/merge.gvcf.9a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9c.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9d.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/q7C7bnUCl5/merge.gvcf.9a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9c.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9d.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/q7C7bnUCl5/merge.gvcf.9a.bcf /tmp/q7C7bnUCl5/merge.gvcf.9b.bcf /tmp/q7C7bnUCl5/merge.gvcf.9c.bcf /tmp/q7C7bnUCl5/merge.gvcf.9d.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/q7C7bnUCl5/merge.gvcf.9a.bcf /tmp/q7C7bnUCl5/merge.gvcf.9b.bcf /tmp/q7C7bnUCl5/merge.gvcf.9c.bcf /tmp/q7C7bnUCl5/merge.gvcf.9d.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/merge.gvcf.9a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9c.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9d.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9e.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/merge.gvcf.9a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9c.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9d.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9e.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/merge.gvcf.9a.bcf /tmp/q7C7bnUCl5/merge.gvcf.9b.bcf /tmp/q7C7bnUCl5/merge.gvcf.9c.bcf /tmp/q7C7bnUCl5/merge.gvcf.9d.bcf /tmp/q7C7bnUCl5/merge.gvcf.9e.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/merge.gvcf.9a.bcf /tmp/q7C7bnUCl5/merge.gvcf.9b.bcf /tmp/q7C7bnUCl5/merge.gvcf.9c.bcf /tmp/q7C7bnUCl5/merge.gvcf.9d.bcf /tmp/q7C7bnUCl5/merge.gvcf.9e.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/q7C7bnUCl5/merge.gvcf.9a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9c.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9d.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9e.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/q7C7bnUCl5/merge.gvcf.9a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9c.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9d.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.9e.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/q7C7bnUCl5/merge.gvcf.9a.bcf /tmp/q7C7bnUCl5/merge.gvcf.9b.bcf /tmp/q7C7bnUCl5/merge.gvcf.9c.bcf /tmp/q7C7bnUCl5/merge.gvcf.9d.bcf /tmp/q7C7bnUCl5/merge.gvcf.9e.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/q7C7bnUCl5/merge.gvcf.9a.bcf /tmp/q7C7bnUCl5/merge.gvcf.9b.bcf /tmp/q7C7bnUCl5/merge.gvcf.9c.bcf /tmp/q7C7bnUCl5/merge.gvcf.9d.bcf /tmp/q7C7bnUCl5/merge.gvcf.9e.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.gvcf.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.gvcf.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.gvcf.10.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.gvcf.10.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -m none /tmp/q7C7bnUCl5/merge.gvcf.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/q7C7bnUCl5/merge.gvcf.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -m none /tmp/q7C7bnUCl5/merge.gvcf.10.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/q7C7bnUCl5/merge.gvcf.10.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/merge.gvcf.10.fa /tmp/q7C7bnUCl5/merge.gvcf.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/merge.gvcf.10.fa /tmp/q7C7bnUCl5/merge.gvcf.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/merge.gvcf.10.fa /tmp/q7C7bnUCl5/merge.gvcf.10.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/merge.gvcf.10.fa /tmp/q7C7bnUCl5/merge.gvcf.10.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/q7C7bnUCl5/merge.gvcf.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/q7C7bnUCl5/merge.gvcf.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/q7C7bnUCl5/merge.gvcf.10.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/q7C7bnUCl5/merge.gvcf.10.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.noidx.a.vcf.gz /tmp/q7C7bnUCl5/merge.noidx.b.vcf.gz /tmp/q7C7bnUCl5/merge.noidx.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.noidx.a.vcf.gz /tmp/q7C7bnUCl5/merge.noidx.b.vcf.gz /tmp/q7C7bnUCl5/merge.noidx.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.noidx.a.bcf /tmp/q7C7bnUCl5/merge.noidx.b.bcf /tmp/q7C7bnUCl5/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.noidx.a.bcf /tmp/q7C7bnUCl5/merge.noidx.b.bcf /tmp/q7C7bnUCl5/merge.noidx.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

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

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

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --no-index /tmp/q7C7bnUCl5/merge.noidx.a.bcf /tmp/q7C7bnUCl5/merge.noidx.b.bcf /tmp/q7C7bnUCl5/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --no-index /tmp/q7C7bnUCl5/merge.noidx.a.bcf /tmp/q7C7bnUCl5/merge.noidx.b.bcf /tmp/q7C7bnUCl5/merge.noidx.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.8.a.vcf.gz /tmp/q7C7bnUCl5/merge.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.8.a.vcf.gz /tmp/q7C7bnUCl5/merge.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.8.a.bcf /tmp/q7C7bnUCl5/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.8.a.bcf /tmp/q7C7bnUCl5/merge.8.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/q7C7bnUCl5/merge.8.a.vcf.gz /tmp/q7C7bnUCl5/merge.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/q7C7bnUCl5/merge.8.a.vcf.gz /tmp/q7C7bnUCl5/merge.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/q7C7bnUCl5/merge.8.a.bcf /tmp/q7C7bnUCl5/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/q7C7bnUCl5/merge.8.a.bcf /tmp/q7C7bnUCl5/merge.8.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.9.a.vcf.gz /tmp/q7C7bnUCl5/merge.9.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.9.a.vcf.gz /tmp/q7C7bnUCl5/merge.9.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version  /tmp/q7C7bnUCl5/merge.9.a.bcf /tmp/q7C7bnUCl5/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/q7C7bnUCl5/merge.9.a.bcf /tmp/q7C7bnUCl5/merge.9.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/q7C7bnUCl5/merge.9.a.vcf.gz /tmp/q7C7bnUCl5/merge.9.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/q7C7bnUCl5/merge.9.a.vcf.gz /tmp/q7C7bnUCl5/merge.9.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/q7C7bnUCl5/merge.9.a.bcf /tmp/q7C7bnUCl5/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/q7C7bnUCl5/merge.9.a.bcf /tmp/q7C7bnUCl5/merge.9.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -m none /tmp/q7C7bnUCl5/merge.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/q7C7bnUCl5/merge.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -m none /tmp/q7C7bnUCl5/merge.10.a.bcf /tmp/q7C7bnUCl5/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/q7C7bnUCl5/merge.10.a.bcf /tmp/q7C7bnUCl5/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -m both /tmp/q7C7bnUCl5/merge.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -m both /tmp/q7C7bnUCl5/merge.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -m both /tmp/q7C7bnUCl5/merge.10.a.bcf /tmp/q7C7bnUCl5/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -m both /tmp/q7C7bnUCl5/merge.10.a.bcf /tmp/q7C7bnUCl5/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -m snp-ins-del /tmp/q7C7bnUCl5/merge.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -m snp-ins-del /tmp/q7C7bnUCl5/merge.10.a.vcf.gz /tmp/q7C7bnUCl5/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -m snp-ins-del /tmp/q7C7bnUCl5/merge.10.a.bcf /tmp/q7C7bnUCl5/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob -m snp-ins-del /tmp/q7C7bnUCl5/merge.10.a.bcf /tmp/q7C7bnUCl5/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.mrules.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.mrules.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.mrules.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.mrules.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.mrules.1.a.bcf /tmp/q7C7bnUCl5/merge.mrules.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.mrules.1.a.bcf /tmp/q7C7bnUCl5/merge.mrules.1.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/q7C7bnUCl5/merge.mrules.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.mrules.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/q7C7bnUCl5/merge.mrules.1.a.vcf.gz /tmp/q7C7bnUCl5/merge.mrules.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/q7C7bnUCl5/merge.mrules.1.a.bcf /tmp/q7C7bnUCl5/merge.mrules.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/q7C7bnUCl5/merge.mrules.1.a.bcf /tmp/q7C7bnUCl5/merge.mrules.1.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.5.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.5.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.5.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.5.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.5.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - --merge none /tmp/q7C7bnUCl5/merge.gvcf.5.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/q7C7bnUCl5/merge.gvcf.5.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - --merge none /tmp/q7C7bnUCl5/merge.gvcf.5.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/q7C7bnUCl5/merge.gvcf.5.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.5.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.11.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.11.b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.11.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.11.a.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.11.b.vcf.gz /tmp/q7C7bnUCl5/merge.gvcf.11.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.11.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.11.b.bcf /tmp/q7C7bnUCl5/merge.gvcf.11.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/q7C7bnUCl5/merge.gvcf.11.a.bcf /tmp/q7C7bnUCl5/merge.gvcf.11.b.bcf /tmp/q7C7bnUCl5/merge.gvcf.11.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' /tmp/q7C7bnUCl5/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-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/q7C7bnUCl5/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-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/q7C7bnUCl5/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-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/q7C7bnUCl5/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]="."' /tmp/q7C7bnUCl5/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]~"\."' /tmp/q7C7bnUCl5/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]~"\."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!="."' /tmp/q7C7bnUCl5/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!~"\."' /tmp/q7C7bnUCl5/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!~"\."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-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/q7C7bnUCl5/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '[ %CHROM] \t [ %POS] \t [ %ID] \t [ %REF] \t [ %ALT] \t [ %QUAL] \t [ %FILTER]' /tmp/q7C7bnUCl5/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '[ %/CHROM] \t [ %/POS] \t [ %/ID] \t [ %/REF] \t [ %/ALT] \t [ %/QUAL] \t [ %/FILTER]' /tmp/q7C7bnUCl5/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' /tmp/q7C7bnUCl5/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="."' /tmp/q7C7bnUCl5/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="0|1"' /tmp/q7C7bnUCl5/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%INFO/AD\t%SUM(INFO/AD)' /tmp/q7C7bnUCl5/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t%SUM(FORMAT/AD)' /tmp/q7C7bnUCl5/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %SUM(FORMAT/AD)]' /tmp/q7C7bnUCl5/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %sSUM(FORMAT/AD)]' /tmp/q7C7bnUCl5/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"' /tmp/q7C7bnUCl5/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"' /tmp/q7C7bnUCl5/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"' /tmp/q7C7bnUCl5/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.string.2.1.txt' /tmp/q7C7bnUCl5/query.string.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.string.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.string.2.1.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.string.2.2.txt' /tmp/q7C7bnUCl5/query.string.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.string.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.string.2.2.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%RSX\t%VKX\n' /tmp/q7C7bnUCl5/query.variantkey.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.variantkey.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%RSX\t%VKX\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XRI\n' -i'XRI[*]>1111' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XRI\n' -i'XRI[*]>1111'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XRF\n' -i'XRF[*]=2e6' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XRF\n' -i'XRF[*]=2e6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[2]~"H"' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[2]~"H"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]~"H"' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]~"H"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-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/q7C7bnUCl5/view.vectors.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.vectors.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"' /tmp/q7C7bnUCl5/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"' /tmp/q7C7bnUCl5/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"' /tmp/q7C7bnUCl5/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"' /tmp/q7C7bnUCl5/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n' /tmp/q7C7bnUCl5/query.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -i'IINT="."'  -f'%POS %IINT\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'IINT="."'  -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'IINT!="."' -f'%POS %IINT\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'IINT!="."' -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'IINT!="."' -f'%POS %IINT\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'IINT!="."' -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'IINT="."'  -f'%POS %IINT\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'IINT="."'  -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'IFLT="."'  -f'%POS %IFLT\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'IFLT="."'  -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'IFLT="."'  -f'%POS %IFLT\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'IFLT="."'  -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'ISTR="."'  -f'%POS %ISTR\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'ISTR="."'  -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'ISTR="."'  -f'%POS %ISTR\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'ISTR="."'  -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n' /tmp/q7C7bnUCl5/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n' /tmp/q7C7bnUCl5/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n' /tmp/q7C7bnUCl5/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n' /tmp/q7C7bnUCl5/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%LINE' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%LINE'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"' /tmp/q7C7bnUCl5/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"' /tmp/q7C7bnUCl5/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"' /tmp/q7C7bnUCl5/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"' /tmp/q7C7bnUCl5/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"' /tmp/q7C7bnUCl5/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-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/q7C7bnUCl5/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter-missing-floats.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-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/q7C7bnUCl5/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter-missing-floats.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n' /tmp/q7C7bnUCl5/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"' /tmp/q7C7bnUCl5/query.filter.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2' /tmp/q7C7bnUCl5/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."' /tmp/q7C7bnUCl5/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 |  FMT/DP="."' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 &  FMT/GQ=589' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1' /tmp/q7C7bnUCl5/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"' /tmp/q7C7bnUCl5/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" &  GT~"2"' /tmp/q7C7bnUCl5/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1' /tmp/q7C7bnUCl5/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]\n' -i'AD[:0]+AD[:1] > 12' /tmp/q7C7bnUCl5/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"' /tmp/q7C7bnUCl5/query.filter.4.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.4.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%ID\n' -i 'ID=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.56.out' /tmp/q7C7bnUCl5/view.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/view.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i 'ID=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.56.out'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01' /tmp/q7C7bnUCl5/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-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/q7C7bnUCl5/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01' /tmp/q7C7bnUCl5/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10' /tmp/q7C7bnUCl5/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210' /tmp/q7C7bnUCl5/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30' /tmp/q7C7bnUCl5/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2' /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2' /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"' /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B"  && FMT/TC[:GT]=="C"' /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."' /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)' /tmp/q7C7bnUCl5/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)' /tmp/q7C7bnUCl5/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)' /tmp/q7C7bnUCl5/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)' /tmp/q7C7bnUCl5/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1' /tmp/q7C7bnUCl5/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1' /tmp/q7C7bnUCl5/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1' /tmp/q7C7bnUCl5/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1' /tmp/q7C7bnUCl5/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT %AD %PBINOM(AD)\n]' -i'phred(binom(FMT/AD))>=0' /tmp/q7C7bnUCl5/query.pbinom.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.pbinom.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904' /tmp/q7C7bnUCl5/query.filter.6.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.6.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6' /tmp/q7C7bnUCl5/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7' /tmp/q7C7bnUCl5/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2' /tmp/q7C7bnUCl5/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75' /tmp/q7C7bnUCl5/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2' /tmp/q7C7bnUCl5/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75' /tmp/q7C7bnUCl5/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2' /tmp/q7C7bnUCl5/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5' /tmp/q7C7bnUCl5/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1' /tmp/q7C7bnUCl5/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.8.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1' /tmp/q7C7bnUCl5/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.8.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]' /tmp/q7C7bnUCl5/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]' /tmp/q7C7bnUCl5/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5' /tmp/q7C7bnUCl5/query.filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.13.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS  %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2' /tmp/q7C7bnUCl5/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS  %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2' /tmp/q7C7bnUCl5/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n' /tmp/q7C7bnUCl5/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0 /tmp/q7C7bnUCl5/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3 /tmp/q7C7bnUCl5/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.11.txt /tmp/q7C7bnUCl5/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.11.txt /tmp/q7C7bnUCl5/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S ^/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.11.txt /tmp/q7C7bnUCl5/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S ^/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l -S ^/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.11.txt /tmp/q7C7bnUCl5/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l -S ^/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.txt /tmp/q7C7bnUCl5/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.txt /tmp/q7C7bnUCl5/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.smpl.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID~"s12"' /tmp/q7C7bnUCl5/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID~"s12"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="rs123"' /tmp/q7C7bnUCl5/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="rs123"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="abc"' /tmp/q7C7bnUCl5/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="abc"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.filter.id.3.txt' /tmp/q7C7bnUCl5/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.filter.id.3.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!="abc"' /tmp/q7C7bnUCl5/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!="abc"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.filter.id.3.txt' /tmp/q7C7bnUCl5/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/query.filter.id.3.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%FILTER\n' /tmp/q7C7bnUCl5/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%FILTER\n' /tmp/q7C7bnUCl5/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER="A;B"' -f'%FILTER\n' /tmp/q7C7bnUCl5/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER="A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n' /tmp/q7C7bnUCl5/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n' /tmp/q7C7bnUCl5/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n' /tmp/q7C7bnUCl5/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'DP%10==2' -f'[ %DP]\n' /tmp/q7C7bnUCl5/filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'DP%10==2' -f'[ %DP]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n' /tmp/q7C7bnUCl5/filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/filter.13.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\n]' /tmp/q7C7bnUCl5/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\n]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\t]\n' /tmp/q7C7bnUCl5/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n' /tmp/q7C7bnUCl5/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]' /tmp/q7C7bnUCl5/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n' /tmp/q7C7bnUCl5/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/q7C7bnUCl5/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/q7C7bnUCl5/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2' /tmp/q7C7bnUCl5/query.filter-or.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter-or.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 |  DP=2' /tmp/q7C7bnUCl5/query.filter-or.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/query.filter-or.vcf.gz | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools norm --no-version -c s /tmp/q7C7bnUCl5/norm.check-ref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.check-ref.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s /tmp/q7C7bnUCl5/norm.check-ref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.check-ref.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both -i 'ID=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.filter.txt' /tmp/q7C7bnUCl5/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both -i 'ID=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.filter.txt' /tmp/q7C7bnUCl5/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both -i 'ALT!="C"' /tmp/q7C7bnUCl5/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both -i 'ALT!="C"' /tmp/q7C7bnUCl5/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d both -i 'ID=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.filter.txt' /tmp/q7C7bnUCl5/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d both -i 'ID=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.filter.txt' /tmp/q7C7bnUCl5/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d both -i 'ALT!="C"' /tmp/q7C7bnUCl5/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d both -i 'ALT!="C"' /tmp/q7C7bnUCl5/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c e /tmp/q7C7bnUCl5/norm.6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.2.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c e /tmp/q7C7bnUCl5/norm.6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.2.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.breakend.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.breakend.1.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.breakend.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.breakend.1.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.sort.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.sort.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - -S lex /tmp/q7C7bnUCl5/norm.sort.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - -S lex /tmp/q7C7bnUCl5/norm.sort.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both /tmp/q7C7bnUCl5/norm.join-missing-ploidy.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both /tmp/q7C7bnUCl5/norm.join-missing-ploidy.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/q7C7bnUCl5/norm.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/q7C7bnUCl5/norm.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version  /tmp/q7C7bnUCl5/norm.symbolic.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.symbolic.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version  /tmp/q7C7bnUCl5/norm.symbolic.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.symbolic.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -cx /tmp/q7C7bnUCl5/norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -cx /tmp/q7C7bnUCl5/norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/q7C7bnUCl5/norm.split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/q7C7bnUCl5/norm.split.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/q7C7bnUCl5/norm.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/q7C7bnUCl5/norm.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- --force /tmp/q7C7bnUCl5/norm.split.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- --force /tmp/q7C7bnUCl5/norm.split.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/q7C7bnUCl5/norm.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/q7C7bnUCl5/norm.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- --keep-sum AD /tmp/q7C7bnUCl5/norm.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- --keep-sum AD /tmp/q7C7bnUCl5/norm.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/q7C7bnUCl5/norm.split.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/q7C7bnUCl5/norm.split.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ /tmp/q7C7bnUCl5/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ /tmp/q7C7bnUCl5/norm.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ /tmp/q7C7bnUCl5/norm.merge.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ /tmp/q7C7bnUCl5/norm.merge.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ /tmp/q7C7bnUCl5/norm.merge.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ /tmp/q7C7bnUCl5/norm.merge.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ -s /tmp/q7C7bnUCl5/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ -s /tmp/q7C7bnUCl5/norm.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -Nc s /tmp/q7C7bnUCl5/norm.setref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -Nc s /tmp/q7C7bnUCl5/norm.setref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version /tmp/q7C7bnUCl5/norm.telomere.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version /tmp/q7C7bnUCl5/norm.telomere.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d snps /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d snps /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d indels /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d indels /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d both /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d both /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d all /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d all /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d none /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d none /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d exact /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d exact /tmp/q7C7bnUCl5/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d none /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d none /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d exact /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d exact /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d indels /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d indels /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d any /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d any /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d both /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d both /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d snps /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d snps /tmp/q7C7bnUCl5/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d exact /tmp/q7C7bnUCl5/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.rmdup.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d exact /tmp/q7C7bnUCl5/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.rmdup.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d all /tmp/q7C7bnUCl5/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.rmdup.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -d all /tmp/q7C7bnUCl5/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.rmdup.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s -a --old-rec-tag XX /tmp/q7C7bnUCl5/norm.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.2.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s -a --old-rec-tag XX /tmp/q7C7bnUCl5/norm.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.2.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/q7C7bnUCl5/norm.iupac.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.iupac.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/q7C7bnUCl5/norm.iupac.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.iupac.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/q7C7bnUCl5/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/q7C7bnUCl5/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s -i'alt="N"' --old-rec-tag XX /tmp/q7C7bnUCl5/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -c s -i'alt="N"' --old-rec-tag XX /tmp/q7C7bnUCl5/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any --force
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any --force -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -a
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -a -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . /tmp/q7C7bnUCl5/atomize.split.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . /tmp/q7C7bnUCl5/atomize.split.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/q7C7bnUCl5/atomize.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/q7C7bnUCl5/atomize.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/q7C7bnUCl5/atomize.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/q7C7bnUCl5/atomize.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/q7C7bnUCl5/atomize.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both /tmp/q7C7bnUCl5/norm.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both /tmp/q7C7bnUCl5/norm.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +any /tmp/q7C7bnUCl5/norm.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +any /tmp/q7C7bnUCl5/norm.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/q7C7bnUCl5/norm.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/q7C7bnUCl5/norm.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/q7C7bnUCl5/norm.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/q7C7bnUCl5/norm.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any /tmp/q7C7bnUCl5/norm.m-any.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any /tmp/q7C7bnUCl5/norm.m-any.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any /tmp/q7C7bnUCl5/norm.phased-split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any /tmp/q7C7bnUCl5/norm.phased-split.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +any /tmp/q7C7bnUCl5/norm.phased-join.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +any /tmp/q7C7bnUCl5/norm.phased-join.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/q7C7bnUCl5/norm.symbolic.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.symbolic.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/q7C7bnUCl5/norm.symbolic.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.symbolic.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/q7C7bnUCl5/norm.symbolic.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.symbolic.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/q7C7bnUCl5/norm.symbolic.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.symbolic.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/q7C7bnUCl5/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.right-align.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/q7C7bnUCl5/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.right-align.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.right-align.gff /tmp/q7C7bnUCl5/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.right-align.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.right-align.gff /tmp/q7C7bnUCl5/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.right-align.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/q7C7bnUCl5/norm.atom-split-norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.atom-split-norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/q7C7bnUCl5/norm.atom-split-norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.atom-split-norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any /tmp/q7C7bnUCl5/norm.string-tags.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m -any /tmp/q7C7bnUCl5/norm.string-tags.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +indels
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +indels -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +snps
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +snps -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +snps
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +snps -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +any
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +any -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - -i 'type="snp"' /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - -i 'type="snp"' /tmp/q7C7bnUCl5/norm.split.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +any /tmp/q7C7bnUCl5/norm.merge.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +any /tmp/q7C7bnUCl5/norm.merge.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both /tmp/q7C7bnUCl5/norm.merge.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m +both /tmp/q7C7bnUCl5/norm.merge.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -i 'INFO/TAG=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.string.1.txt' /tmp/q7C7bnUCl5/filter.string.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -i 'INFO/TAG=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.string.1.txt' /tmp/q7C7bnUCl5/filter.string.1.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -i 'FMT/TAG=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.string.1.txt' /tmp/q7C7bnUCl5/filter.string.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -i 'FMT/TAG=@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.string.1.txt' /tmp/q7C7bnUCl5/filter.string.1.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -HA /tmp/q7C7bnUCl5/merge.gvcf.2.a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -HAA /tmp/q7C7bnUCl5/merge.gvcf.2.a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r 1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r 1 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r 1:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r 1:1-2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r 1:1,1:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r 1:1,1:2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r 1:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r 1:1-1 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1}
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1} | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1}:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1}:1-2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1}:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1}:1-1 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1} | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}:1-2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}:1-1 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}-2
.. ok, expected non-zero status

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/weird-chr-names.vcf.gz -r {1:1-1}-2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok, expected non-zero status

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -aUc1 -C1 -s NA00002 -v snps /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -aUc1 -C1 -s NA00002 -v snps /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -f PASS -Xks NA00003 /tmp/q7C7bnUCl5/view.vcf.gz -r20,Y
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -f PASS -Xks NA00003 /tmp/q7C7bnUCl5/view.vcf.gz -r20,Y | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -xs NA00003 /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -xs NA00003 /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -p /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -p /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -P /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -P /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -hm2 -M2 -q0.3 -Q0.7 /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -hm2 -M2 -q0.3 -Q0.7 /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Hu /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -GVsnps /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -GVsnps /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -ne 'INDEL=1 || PV4[0]<0.006' /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -ne 'INDEL=1 || PV4[0]<0.006' /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -s ^NA00003 /tmp/q7C7bnUCl5/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -s ^NA00003 /tmp/q7C7bnUCl5/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version  /tmp/q7C7bnUCl5/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/q7C7bnUCl5/view.omitgenotypes.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -G /tmp/q7C7bnUCl5/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -G /tmp/q7C7bnUCl5/view.omitgenotypes.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -HG /tmp/q7C7bnUCl5/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -a /tmp/q7C7bnUCl5/many.alleles.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -a /tmp/q7C7bnUCl5/many.alleles.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -asA /tmp/q7C7bnUCl5/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -asA /tmp/q7C7bnUCl5/view.vectors.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -asB /tmp/q7C7bnUCl5/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -asB /tmp/q7C7bnUCl5/view.vectors.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -asA /tmp/q7C7bnUCl5/view.vectors.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -asA /tmp/q7C7bnUCl5/view.vectors.2.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:0]="AAAAAA"' /tmp/q7C7bnUCl5/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:2]="C"' /tmp/q7C7bnUCl5/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:4]="EE"' /tmp/q7C7bnUCl5/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -i'FMT/FRS[*:1]="BB"' /tmp/q7C7bnUCl5/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -i'TXT0="text"' /tmp/q7C7bnUCl5/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.chrs.tab /tmp/q7C7bnUCl5/view.chrs.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.chrs.tab /tmp/q7C7bnUCl5/view.chrs.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -i 'POS>=3062917' /tmp/q7C7bnUCl5/filter.2.vcf.gz 1:3062917-3157410
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -i 'POS>=3062917' /tmp/q7C7bnUCl5/filter.2.vcf.gz 1:3062917-3157410 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -r 1:10,1:12,1:10 /tmp/q7C7bnUCl5/idx.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -r 1:1172777-1172804,1:1172806-1172808 /tmp/q7C7bnUCl5/idx.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/idx.2.bed /tmp/q7C7bnUCl5/idx.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/idx.3.bed /tmp/q7C7bnUCl5/idx.3.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/idx.4.bed /tmp/q7C7bnUCl5/idx.4.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Ht 2 /tmp/q7C7bnUCl5/view-t.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Ht 3 /tmp/q7C7bnUCl5/view-t.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 0 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 1 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 2 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 0 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 1 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 2 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 0 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 1 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 2 /tmp/q7C7bnUCl5/overlap.vcf.gz 
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.1.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.1.vcf     | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.1.vcf -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.2.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.2.vcf     | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.2.vcf -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.3.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.3.vcf     | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.4.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.4.vcf     | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.4.vcf -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.5.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.5.vcf     | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view64bit.5.vcf -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -C5:nonmajor /tmp/q7C7bnUCl5/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -c6:nonmajor /tmp/q7C7bnUCl5/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -q0.3:major /tmp/q7C7bnUCl5/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -i 'Gene.refGene=="RAD21L1"' /tmp/q7C7bnUCl5/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -i 'Gene.refGene~"NOD"' /tmp/q7C7bnUCl5/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -i 'LJB2_MutationTaster=="0.291000"' /tmp/q7C7bnUCl5/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -H -a /tmp/q7C7bnUCl5/view-a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.sites.txt /tmp/q7C7bnUCl5/view.sites.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.sites.txt /tmp/q7C7bnUCl5/view.sites.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.sites.txt.gz /tmp/q7C7bnUCl5/view.sites.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.sites.txt.gz /tmp/q7C7bnUCl5/view.sites.vcf.gz  | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -h 0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -h 1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -h 5 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -h 22 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -h 23 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -n 0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -n 1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -n 5 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -h 5 -n 5 < /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -s0 /tmp/q7C7bnUCl5/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Ob /tmp/q7C7bnUCl5/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -s0
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -s1 /tmp/q7C7bnUCl5/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Ob /tmp/q7C7bnUCl5/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -s1
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -s2 -h2 /tmp/q7C7bnUCl5/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Ob /tmp/q7C7bnUCl5/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools head -s2 -h2
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -m -s sample1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -m -s sample1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -m -s ^sample2,sample3 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -m -s ^sample2,sample3 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -m -s sample3 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -m -s sample3 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -m -s ^sample1,sample2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -m -s ^sample1,sample2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -m --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-ploidy.1.txt -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-ploidy.1.ped /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-ploidy.1.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -m --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-ploidy.1.txt -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-ploidy.1.ped /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-ploidy.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mg0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mg0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.3.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.3.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.4.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.4.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.5.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.5.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.hwe.samples --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.hwe.samples --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.tab.gz  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.tab.gz  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.2.tab.gz  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.2.tab.gz  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.3.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.3.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.4.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.4.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.5.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.5.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.6.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.4.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.6.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.4.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.7.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.5.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.7.tab.gz -i /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.cals.1.tab.gz  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.cals.1.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.cals.1.tab.gz  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.cals.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.cals.2.tab.gz  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.cals.2.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/q7C7bnUCl5/mpileup.cals.2.tab.gz  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.cals.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -cv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.c.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -cv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.c.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-G.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-G.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-G.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-G.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -mv -F AN_POP,AC_POP /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-G.2.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -mv -F AN_POP,AC_POP /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call-G.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -m -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.txt /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -m -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.txt /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call --no-version -m -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.txt -a GP,GQ /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools call -Ob -m -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.txt -a GP,GQ /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S. -e'TXT0="text"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S. -e'TXT0="text"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S. -e'FMT/FRS[*:1]="BB"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FRS[*:1]="BB"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:0]="AAAAAA"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:0]="AAAAAA"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:1]="BBB"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:1]="BBB"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:4]="EE"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:4]="EE"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S. -e'FMT/STR="XX"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/STR="XX"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S. -e'FMT/FILTER="aaa"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.2.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FILTER="aaa"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/view.filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -mx -g2 -G2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -mx -g2 -G2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/filter.2.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -e'INFO/DP=19' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -m+ /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -m+ /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -mx /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -mx /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -m+x /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -m+x /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -m+ /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+ /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -mx /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -mx /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -m+x /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+x /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools filter -i'FMT/GT="0/0" && AC[*]=2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'FMT/GT="0/0" && AC[*]=2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'AC[*]=2 && FMT/GT="0/0"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'AC[*]=2 && FMT/GT="0/0"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'ALT="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'ALT="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -i 'FORMAT/TEST3<25' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.4.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -i 'FORMAT/TEST3<25' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.4.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -i 'FORMAT/TEST4<25' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.4.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -i 'FORMAT/TEST4<25' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.4.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="A"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="A"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="RR"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="RR"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="RA"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="RA"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="AR"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="AR"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="AA"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="AA"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="aA"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="aA"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="Aa"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="Aa"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="HOM"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="HOM"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="HET"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="HET"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'GT="HAP"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'GT="HAP"' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'AD[:1]=11' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'AD[:1]=11' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'AD[1:]=11' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'AD[1:]=11' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'FR[0:1]=11' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%FR]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'FR[0:1]=11' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%FR]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'AD[*]="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'AD[*]="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'AD[0:0]=="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'AD[0:0]=="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'AD[0:0]!="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'AD[0:0]!="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'QUAL=="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\t%QUAL\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'QUAL=="."' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\t%QUAL\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'N_PASS(DP>32)=1' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'N_PASS(DP>32)=1' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'F_PASS(DP>32)=0.5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'F_PASS(DP>32)=0.5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'F_MISSING>=1/5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'F_MISSING>=1/5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'F_MISSING>=0.2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'F_MISSING>=0.2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'F_PASS(GT=="mis")>=1/5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'F_PASS(GT=="mis")>=1/5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i'F_PASS(GT=="mis")>=0.2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i'F_PASS(GT=="mis")>=0.2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -mx -s + -g2:mnp,indel,other /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.7.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -mx -s + -g2:mnp,indel,other /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.7.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'FORMAT/AO==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'FORMAT/AO==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'MAX(FORMAT/AO[0:])==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'MAX(FORMAT/AO[0:])==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'AVG(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'AVG(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'MEDIAN(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'MEDIAN(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'STDEV(FORMAT/AO[0:])=0.5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'STDEV(FORMAT/AO[0:])=0.5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'SUM(FORMAT/AO[0:])=7' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'SUM(FORMAT/AO[0:])=7' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'SMPL_MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'SMPL_MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'sMIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'sMIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'ABS(sAVG(FORMAT/AO)-3.66666)<1e-5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(sAVG(FORMAT/AO)-3.66666)<1e-5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'sMEDIAN(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'sMEDIAN(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'ABS(sSTDEV(FORMAT/AO)-1.2472191)<1e-5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(sSTDEV(FORMAT/AO)-1.2472191)<1e-5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'sSUM(FORMAT/AO)==11' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'sSUM(FORMAT/AO)==11' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i 'QUAL/FMT/AD==55' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.9.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i 'QUAL/FMT/AD==55' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.9.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i 'QUAL/INFO/AD==10' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.9.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i 'QUAL/INFO/AD==10' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.9.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'ABS(SMPL_MAX(FORMAT/AO))=5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(SMPL_MAX(FORMAT/AO))=5' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'PHRED(AO[1:])>-4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'PHRED(AO[1:])>-4' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -S . -e 'ABS(AO[1:])==2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(AO[1:])==2' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i 'sum(AD[*]) > FORMAT/DP' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i 'sum(AD[*]) > FORMAT/DP' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i 'FORMAT/DP < sum(AD[*])' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i 'FORMAT/DP < sum(AD[*])' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i 'sum(AD[*]) < FORMAT/DP' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i 'sum(AD[*]) < FORMAT/DP' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -i 'FORMAT/DP > sum(AD[*])' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob -i 'FORMAT/DP > sum(AD[*])' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter --soft-filter xxx --mask ^2:1005-1008 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask ^2:1005-1008 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools sort -m 0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools sort -Ob -m 0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools sort -m 1000 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools sort -Ob -m 1000 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/regions.tab /tmp/q7C7bnUCl5/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/regions.tab
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/regions.tab /tmp/q7C7bnUCl5/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/q7C7bnUCl5/regions.tab.gz /tmp/q7C7bnUCl5/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/q7C7bnUCl5/regions.tab.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/q7C7bnUCl5/regions.tab.gz /tmp/q7C7bnUCl5/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/q7C7bnUCl5/regions.bed /tmp/q7C7bnUCl5/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/q7C7bnUCl5/regions.bed
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/q7C7bnUCl5/regions.bed /tmp/q7C7bnUCl5/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/q7C7bnUCl5/regions.bed.gz /tmp/q7C7bnUCl5/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/q7C7bnUCl5/regions.bed.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/q7C7bnUCl5/regions.bed.gz /tmp/q7C7bnUCl5/regions.vcf.gz
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots36.bed.gz  -c CHROM,POS,-,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots36.bed.gz  -c CHROM,POS,-,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots36.bed.gz  -c CHROM,BEG,END,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots36.bed.gz  -c CHROM,BEG,END,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots35.vcf.gz  -c CHROM,POS,~ID,REF,ALT,INFO/src /tmp/q7C7bnUCl5/annotate35.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots35.vcf.gz  -c CHROM,POS,~ID,REF,ALT,INFO/src /tmp/q7C7bnUCl5/annotate35.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.escape.1.tab.gz  -c CHROM,POS,ISTR,FMT/FSTR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.escape.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.escape.1.tab.gz  -c CHROM,POS,ISTR,FMT/FSTR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.escape.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.match.1.tab.gz  -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.match.1.tab.gz  -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.tab.gz -h /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.tab.gz -h /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.hdr -c CHROM,POS,-,T_STR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.hdr -c CHROM,POS,-,T_STR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.hdr -c CHROM,FROM,TO,T_STR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.hdr -c CHROM,FROM,TO,T_STR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/q7C7bnUCl5/annotate.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/q7C7bnUCl5/annotate.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate   -x FORMAT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob   -x FORMAT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots4.vcf.gz  -c +INFO /tmp/q7C7bnUCl5/annotate4.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots4.vcf.gz  -c +INFO /tmp/q7C7bnUCl5/annotate4.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots4.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate4.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots4.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate4.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots10.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate10.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots10.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate10.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots11.tab.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots11.tab.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots11.vcf.gz  -c FMT /tmp/q7C7bnUCl5/annotate11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots11.vcf.gz  -c FMT /tmp/q7C7bnUCl5/annotate11.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/q7C7bnUCl5/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate   -x FILTER/XX,INFO/XX --force /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate14.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob   -x FILTER/XX,INFO/XX --force /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate14.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate   -x FILTER /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate16.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob   -x FILTER /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate16.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate17.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate17.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate17.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate17.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate17.3.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate17.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate17.3.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate17.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate18.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate18.1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate18.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate18.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate   -c INFO/FILTER:=FILTER /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate19.dst.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob   -c INFO/FILTER:=FILTER /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate19.dst.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER,FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER,FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=./FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=./FILTER /tmp/q7C7bnUCl5/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate20.src.vcf.gz  -c  FMT/GT /tmp/q7C7bnUCl5/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate20.src.vcf.gz  -c  FMT/GT /tmp/q7C7bnUCl5/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate20.src.vcf.gz  -c +FMT/GT /tmp/q7C7bnUCl5/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate20.src.vcf.gz  -c +FMT/GT /tmp/q7C7bnUCl5/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate20.src.vcf.gz  -c -FMT/GT /tmp/q7C7bnUCl5/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate20.src.vcf.gz  -c -FMT/GT /tmp/q7C7bnUCl5/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.multi.tab.gz  -c CHROM,POS,REF,ALT,ANN -l ANN:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.multi.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.multi.tab.gz  -c CHROM,POS,REF,ALT,ANN -l ANN:append /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.multi.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate.missing-append.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate.missing-append.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots9.tab.gz  -c CHROM,POS,REF,ALT,+ID /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate9.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots9.tab.gz  -c CHROM,POS,REF,ALT,+ID /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate9.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate   --rename-annots /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate21.txt /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob   --rename-annots /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate21.txt /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/q7C7bnUCl5/annotate22.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/q7C7bnUCl5/annotate22.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate23.tab.gz  -c CHROM,POS,~ID,REF,ALT,INFO/END /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate23.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate23.tab.gz  -c CHROM,POS,~ID,REF,ALT,INFO/END /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate23.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate24.src.vcf.gz  -c XX /tmp/q7C7bnUCl5/annotate24.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate24.src.vcf.gz  -c XX /tmp/q7C7bnUCl5/annotate24.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate25.tab.gz  -c CHROM,POS,ID,REF,ALT,~INFO/END /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate25.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate25.tab.gz  -c CHROM,POS,ID,REF,ALT,~INFO/END /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate25.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate26.tab.gz  -c CHROM,POS,-POS /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate26.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate26.tab.gz  -c CHROM,POS,-POS /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate26.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots.id.vcf.gz  -c ALT /tmp/q7C7bnUCl5/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots.id.vcf.gz  -c ALT /tmp/q7C7bnUCl5/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots.id.vcf.gz  -c +ALT /tmp/q7C7bnUCl5/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots.id.vcf.gz  -c +ALT /tmp/q7C7bnUCl5/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots.id.2.vcf.gz  --pair-logic some -c +ID /tmp/q7C7bnUCl5/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots.id.2.vcf.gz  --pair-logic some -c +ID /tmp/q7C7bnUCl5/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots.id.2.vcf.gz  --pair-logic any -c +ID /tmp/q7C7bnUCl5/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots.id.2.vcf.gz  --pair-logic any -c +ID /tmp/q7C7bnUCl5/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annotate27.tab.gz  -c CHROM,POS,REF,ALT,EVIDENCE /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate27.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annotate27.tab.gz  -c CHROM,POS,REF,ALT,EVIDENCE /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate27.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate   -m XXX /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob   -m XXX /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate34.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/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-build/bcftools-1.23/test/annotate34.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/q7C7bnUCl5/annots-mark.bed.gz  -c CHROM,FROM,TO -m TAG /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annots-mark.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -Ob -a /tmp/q7C7bnUCl5/annots-mark.bed.gz  -c CHROM,FROM,TO -m TAG /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annots-mark.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/q7C7bnUCl5/checkploidy.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/q7C7bnUCl5/checkploidy.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/q7C7bnUCl5/checkploidy.2.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/q7C7bnUCl5/checkploidy.2.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/q7C7bnUCl5/checkploidy.2.vcf.gz -- -m | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/q7C7bnUCl5/checkploidy.2.bcf -- -m | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +missing2ref --no-version /tmp/q7C7bnUCl5/plugin1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +missing2ref --no-version /tmp/q7C7bnUCl5/plugin1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/plugin1.vcf.gz -- -t . -n 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/plugin1.bcf -- -t . -n 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.2.vcf.gz -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.2.bcf -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.2.vcf.gz -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/setGT.samples.txt]="het" & binom(AD[@/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.2.bcf -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/setGT.samples.txt]="het" & binom(AD[@/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.2.vcf.gz -- -t a -n i | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.2.bcf -- -t a -n i | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.3.vcf.gz -- -t a -n pM | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.3.bcf -- -t a -n pM | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.3.vcf.gz -- -t a -n pm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.3.bcf -- -t a -n pm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.3.bcf -- -t a -n c:1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.3.bcf -i 'GT="mis"' -- -t . -nc:././. | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.5.bcf -- -t a -n X | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.6.vcf.gz -- -t ./x -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.6.bcf -- -t ./x -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.6.vcf.gz -- -t . -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.6.bcf -- -t . -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +setGT --no-version /tmp/q7C7bnUCl5/setGT.6.bcf -- -t r:0.5 -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-AN-AC --no-version /tmp/q7C7bnUCl5/plugin1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-AN-AC --no-version /tmp/q7C7bnUCl5/plugin1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +dosage /tmp/q7C7bnUCl5/dosage.vcf.gz -- -t PL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +dosage /tmp/q7C7bnUCl5/dosage.bcf -- -t PL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +dosage /tmp/q7C7bnUCl5/dosage.vcf.gz -- -t GL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +dosage /tmp/q7C7bnUCl5/dosage.bcf -- -t GL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +dosage /tmp/q7C7bnUCl5/dosage.vcf.gz -- -t GT | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +dosage /tmp/q7C7bnUCl5/dosage.bcf -- -t GT | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixploidy --no-version /tmp/q7C7bnUCl5/fixploidy.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/fixploidy.samples -p /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/fixploidy.ploidy | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixploidy --no-version /tmp/q7C7bnUCl5/fixploidy.bcf -- -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/fixploidy.samples -p /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/fixploidy.ploidy | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +guess-ploidy /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +guess-ploidy /tmp/q7C7bnUCl5/view.PL.bcf -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +guess-ploidy /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +guess-ploidy /tmp/q7C7bnUCl5/view.GL.bcf -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/view.GL.vcf.gz -- -r --gl-to-pl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/view.GL.bcf -- -r --gl-to-pl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/view.GL.vcf.gz -- --gl-to-gp | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/view.GL.bcf -- --gl-to-gp | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/tag2tag.LPL.1.vcf.gz -- --LXX-to-XX | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/tag2tag.LPL.1.bcf -- --LXX-to-XX | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/tag2tag.LPL.1.bcf -- --LXX-to-XX -r | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +tag2tag --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +add-variantkey /tmp/q7C7bnUCl5/query.variantkey.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +add-variantkey /tmp/q7C7bnUCl5/query.variantkey.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variantkey-hex /tmp/q7C7bnUCl5/query.variantkey.vcf.gz test/ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variantkey-hex /tmp/q7C7bnUCl5/query.variantkey.bcf test/ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +allele-length /tmp/q7C7bnUCl5/query.nucleotide.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +allele-length /tmp/q7C7bnUCl5/query.nucleotide.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/view.bcf -- -t AC,AN,AF,MAF,NS | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/view.vcf.gz -- -t AC -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/view.bcf -- -t AC -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/view.vcf.gz -- -t "DP:1=int(sum(FORMAT/DP))" -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/view.bcf -- -t "DP:1=int(sum(FORMAT/DP))" -S /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/many-alts.vcf.gz -- -t AN,AC | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/many-alts.bcf -- -t AN,AC | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fill-tags-hemi.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fill-tags-hemi.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fill-tags-hemi.vcf.gz -- -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fill-tags-hemi.bcf -- -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fill-tags-hwe.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fill-tags-hwe.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fill-tags-VAF.vcf.gz -- -t VAF,VAF1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/fill-tags-VAF.bcf -- -t VAF,VAF1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-tags --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/view.bcf  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/view.bcf -- -H | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/view.bcf -- -Hm | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/view.bcf -- -Hmv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/view.bcf -- -Hv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/view.bcf -- -m | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/view.bcf -- -mv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTisec /tmp/q7C7bnUCl5/view.bcf -- -v | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-switch-rate /tmp/q7C7bnUCl5/trio.vcf.gz -- -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-switch-rate /tmp/q7C7bnUCl5/trio.bcf -- -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-stats /tmp/q7C7bnUCl5/trio-stats.vcf.gz -a 1 -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-stats /tmp/q7C7bnUCl5/trio-stats.bcf -a 1 -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-stats /tmp/q7C7bnUCl5/trio-stats.vcf.gz -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-stats /tmp/q7C7bnUCl5/trio-stats.bcf -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +smpl-stats /tmp/q7C7bnUCl5/indel-stats.vcf.gz | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +smpl-stats /tmp/q7C7bnUCl5/indel-stats.bcf | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +indel-stats /tmp/q7C7bnUCl5/indel-stats.vcf.gz | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +indel-stats /tmp/q7C7bnUCl5/indel-stats.bcf | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +indel-stats /tmp/q7C7bnUCl5/indel-stats.vcf.gz  -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +indel-stats /tmp/q7C7bnUCl5/indel-stats.bcf  -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +indel-stats /tmp/q7C7bnUCl5/indel-stats.vcf.gz  -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +indel-stats /tmp/q7C7bnUCl5/indel-stats.bcf  -p /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +ad-bias /tmp/q7C7bnUCl5/ad-bias.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +ad-bias /tmp/q7C7bnUCl5/ad-bias.bcf -- -s /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +ad-bias /tmp/q7C7bnUCl5/ad-bias.2.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +ad-bias /tmp/q7C7bnUCl5/ad-bias.2.bcf -- -s /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +ad-bias /tmp/q7C7bnUCl5/ad-bias.vcf.gz --no-version -- -s /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +ad-bias /tmp/q7C7bnUCl5/ad-bias.bcf --no-version -- -s /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +ad-bias /tmp/q7C7bnUCl5/ad-bias.2.vcf.gz --no-version -- -s /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +ad-bias /tmp/q7C7bnUCl5/ad-bias.2.bcf --no-version -- -s /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +af-dist /tmp/q7C7bnUCl5/af-dist.vcf.gz  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +af-dist /tmp/q7C7bnUCl5/af-dist.bcf  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa -i /tmp/q7C7bnUCl5/fixref.2b.vcf.gz | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa -i /tmp/q7C7bnUCl5/fixref.2b.vcf.gz | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.3.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.3.bcf -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fixref /tmp/q7C7bnUCl5/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-from-fasta /tmp/q7C7bnUCl5/aa.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/aa.fa -c AA -h /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-from-fasta /tmp/q7C7bnUCl5/aa.bcf -- -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/aa.fa -c AA -h /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-from-fasta /tmp/q7C7bnUCl5/aa.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-from-fasta /tmp/q7C7bnUCl5/aa.bcf -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-from-fasta /tmp/q7C7bnUCl5/ref.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +fill-from-fasta /tmp/q7C7bnUCl5/ref.bcf -- -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTsubset --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTsubset --no-version /tmp/q7C7bnUCl5/view.bcf -- -s NA00001 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTsubset --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTsubset --no-version /tmp/q7C7bnUCl5/view.bcf -- -s NA00001,NA00002 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTsubset --no-version /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +GTsubset --no-version /tmp/q7C7bnUCl5/view.bcf -- -s NA00001,NA00002,NA00003 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.vcf.gz -p child1,dad1,mom1 -md | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.bcf -p child1,dad1,mom1 -md | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.vcf.gz -p child1,dad1,mom1 -mg | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.bcf -p child1,dad1,mom1 -mg | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.vcf.gz -p child1,dad1,mom1 -me | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.bcf -p child1,dad1,mom1 -me | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.vcf.gz -p child1,dad1,mom1 -ma | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.bcf -p child1,dad1,mom1 -ma | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.vcf.gz -p child1,dad1,mom1 -mm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.bcf -p child1,dad1,mom1 -mm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +mendelian2 /tmp/q7C7bnUCl5/mendelian.bcf -p child1,dad1,mom1 | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/contrast.vcf.gz -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/contrast0.txt -1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/contrast1.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/contrast.bcf -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/contrast0.txt -1 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/contrast1.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +contrast /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.1.vcf.gz -p proband,father,mother --ppl --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.1.bcf -p proband,father,mother --ppl --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.2.vcf.gz -p proband,father,mother --ppl --dnm-tag DNM:log --force-AD | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.2.bcf -p proband,father,mother --ppl --dnm-tag DNM:log --force-AD | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother --use-DNG | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.4.bcf -p proband,father,mother --use-DNG | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother           | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.4.bcf -p proband,father,mother           | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.4.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.4.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.5.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.5.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.5.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.5.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.6.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.6.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.6.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.6.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.7.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.7.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.7.vcf.gz -p proband,father,mother        --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.7.bcf -p proband,father,mother        --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.8.vcf.gz -p proband,father,mother  | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.8.bcf -p proband,father,mother  | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.9.vcf.gz -p 1X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.9.bcf -p 1X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.9.vcf.gz -p 2X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.9.bcf -p 2X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.10.vcf.gz -p proband,father,mother --with-pAD | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.10.bcf -p proband,father,mother --with-pAD | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.11.vcf.gz -p 1X:proband,father,mother | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.11.bcf -p 1X:proband,father,mother | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.11.vcf.gz -p 1X:proband,father,mother --strictly-novel | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +trio-dnm2 /tmp/q7C7bnUCl5/trio-dnm/trio-dnm.11.bcf -p 1X:proband,father,mother --strictly-novel | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +gvcfz /tmp/q7C7bnUCl5/gvcfz.vcf.gz -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +gvcfz /tmp/q7C7bnUCl5/gvcfz.bcf -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +gvcfz /tmp/q7C7bnUCl5/gvcfz.vcf.gz -g 'PASS:GQ>10; FLT:-' -a | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +gvcfz /tmp/q7C7bnUCl5/gvcfz.bcf -g 'PASS:GQ>10; FLT:-' -a | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +gvcfz /tmp/q7C7bnUCl5/gvcfz.2.vcf.gz -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +gvcfz /tmp/q7C7bnUCl5/gvcfz.2.bcf -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/remove-overlaps.1.vcf.gz -m overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/remove-overlaps.1.bcf -m overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/remove-overlaps.1.bcf -m overlap -M overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/remove-overlaps.1.bcf -m overlap -O t | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/remove-overlaps.1.vcf.gz -m overlap --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/remove-overlaps.1.bcf -m overlap --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/remove-overlaps.1.bcf -m dup -M DUP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +remove-overlaps /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.vcf.gz -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.bcf -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.vcf.gz -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.bcf -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.vcf.gz -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.bcf -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.vcf.gz -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.bcf -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.vcf.gz -c gnomAD_NFE_AF:real,ALLELE_NUM:int | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.bcf -c gnomAD_NFE_AF:real,ALLELE_NUM:int | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.vcf.gz -c gnomAD_NFE_AF,ALLELE_NUM          | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.bcf -c gnomAD_NFE_AF,ALLELE_NUM          | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.5.vcf.gz -s :synonymous    -c Consequence | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.5.bcf -s :synonymous    -c Consequence | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.5.vcf.gz -s :synonymous -x -c Consequence | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.5.bcf -s :synonymous -x -c Consequence | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.6.vcf.gz -c - | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.6.bcf -c - | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.select-tr-expr.bcf -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.select-tr-expr.bcf -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.filter-missing-bt2098.vcf.gz -e 'gnomad_genomes_AF >= 0.02' | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.filter-missing-bt2098.bcf -e 'gnomad_genomes_AF >= 0.02' | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.filter-missing-bt2098.vcf.gz -i 'gnomad_genomes_AF < 0.02 || gnomad_genomes_AF=="."' | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split-vep /tmp/q7C7bnUCl5/split-vep.filter-missing-bt2098.bcf -i 'gnomad_genomes_AF < 0.02 || gnomad_genomes_AF=="."' | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +parental-origin /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/q7C7bnUCl5/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/q7C7bnUCl5/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/q7C7bnUCl5/prune.2.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/q7C7bnUCl5/prune.2.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5 -f MaxR2 /tmp/q7C7bnUCl5/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5 -f MaxR2 /tmp/q7C7bnUCl5/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5  /tmp/q7C7bnUCl5/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5  /tmp/q7C7bnUCl5/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF /tmp/q7C7bnUCl5/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF /tmp/q7C7bnUCl5/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF -i 'GT="alt"' /tmp/q7C7bnUCl5/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF -i 'GT="alt"' /tmp/q7C7bnUCl5/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N 1st /tmp/q7C7bnUCl5/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N 1st /tmp/q7C7bnUCl5/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N rand --random-seed 1 /tmp/q7C7bnUCl5/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N rand --random-seed 1 /tmp/q7C7bnUCl5/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' -k /tmp/q7C7bnUCl5/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' -k /tmp/q7C7bnUCl5/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' /tmp/q7C7bnUCl5/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' /tmp/q7C7bnUCl5/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 3bp -m count=2 -i 'XX!=0' /tmp/q7C7bnUCl5/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +prune -w 3bp -m count=2 -i 'XX!=0' /tmp/q7C7bnUCl5/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance /tmp/q7C7bnUCl5/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance /tmp/q7C7bnUCl5/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance -d nearest /tmp/q7C7bnUCl5/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance -d nearest /tmp/q7C7bnUCl5/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance -d fwd /tmp/q7C7bnUCl5/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance -d fwd /tmp/q7C7bnUCl5/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance -d rev /tmp/q7C7bnUCl5/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance -d rev /tmp/q7C7bnUCl5/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance -d both /tmp/q7C7bnUCl5/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +variant-distance -d both /tmp/q7C7bnUCl5/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_plugin_vrfs:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +vrfs -a /tmp/q7C7bnUCl5/mpileup.bam.list -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/vrfs.sites.txt | sort
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.1.vcf -o /tmp/q7C7bnUCl5/split.1.1   && cd /tmp/q7C7bnUCl5/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-build/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.1.vcf -o /tmp/q7C7bnUCl5/split.1.2 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.smpl.1.2.txt  && cd /tmp/q7C7bnUCl5/split.1.2  && for f in A.vcf B.vcf C.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.1.vcf -o /tmp/q7C7bnUCl5/split.1.3 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.smpl.1.3.txt  && cd /tmp/q7C7bnUCl5/split.1.3  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.1.vcf -o /tmp/q7C7bnUCl5/split.1.4 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.smpl.1.3.txt -i 'GT[0]="alt"'  && cd /tmp/q7C7bnUCl5/split.1.4  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.1.vcf -o /tmp/q7C7bnUCl5/split.1.5 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.smpl.1.3.txt -i 'GT="alt"'  && cd /tmp/q7C7bnUCl5/split.1.5  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.1.vcf -o /tmp/q7C7bnUCl5/split.1.6 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.smpl.1.4.txt -i 'GT="alt"'  && cd /tmp/q7C7bnUCl5/split.1.6  && for f in file1.vcf file2.vcf file3.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.1.vcf -o /tmp/q7C7bnUCl5/split.1.7 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.grp.1.1.txt  && cd /tmp/q7C7bnUCl5/split.1.7  && for f in A.vcf A1.vcf A2.vcf B.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.2.vcf -o /tmp/q7C7bnUCl5/split.2.1   && cd /tmp/q7C7bnUCl5/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-build/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_scatter:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/scatter.1.vcf -o /tmp/q7C7bnUCl5/scatter.1.1 -n 3 && cd /tmp/q7C7bnUCl5/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-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/scatter.1.vcf -o /tmp/q7C7bnUCl5/scatter.1.2 -s 21,22 && cd /tmp/q7C7bnUCl5/scatter.1.2 && cat 21.vcf 22.vcf | grep -v ^##
.. ok

test_plugin_scatter:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/scatter.1.vcf -o /tmp/q7C7bnUCl5/scatter.1.3 -s 21,22 -x X && cd /tmp/q7C7bnUCl5/scatter.1.3 && cat 21.vcf 22.vcf X.vcf | grep -v ^##
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -G  /tmp/q7C7bnUCl5/concat.1.a.vcf.gz /tmp/q7C7bnUCl5/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -G  /tmp/q7C7bnUCl5/concat.1.a.vcf.gz /tmp/q7C7bnUCl5/concat.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -G  /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/concat.1.a.vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/concat.1.b.vcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version   /tmp/q7C7bnUCl5/concat.1.a.vcf.gz /tmp/q7C7bnUCl5/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob   /tmp/q7C7bnUCl5/concat.1.a.vcf.gz /tmp/q7C7bnUCl5/concat.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version   /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/concat.1.a.vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/concat.1.b.vcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version   /tmp/q7C7bnUCl5/concat.1.a.bcf /tmp/q7C7bnUCl5/concat.1.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob   /tmp/q7C7bnUCl5/concat.1.a.bcf /tmp/q7C7bnUCl5/concat.1.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -a  /tmp/q7C7bnUCl5/concat.2.a.vcf.gz /tmp/q7C7bnUCl5/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -a  /tmp/q7C7bnUCl5/concat.2.a.vcf.gz /tmp/q7C7bnUCl5/concat.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -a  /tmp/q7C7bnUCl5/concat.2.a.bcf /tmp/q7C7bnUCl5/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -a  /tmp/q7C7bnUCl5/concat.2.a.bcf /tmp/q7C7bnUCl5/concat.2.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -aD  /tmp/q7C7bnUCl5/concat.2.a.vcf.gz /tmp/q7C7bnUCl5/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -aD  /tmp/q7C7bnUCl5/concat.2.a.vcf.gz /tmp/q7C7bnUCl5/concat.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -aD  /tmp/q7C7bnUCl5/concat.2.a.bcf /tmp/q7C7bnUCl5/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -aD  /tmp/q7C7bnUCl5/concat.2.a.bcf /tmp/q7C7bnUCl5/concat.2.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/q7C7bnUCl5/concat.3.a.vcf.gz /tmp/q7C7bnUCl5/concat.3.b.vcf.gz /tmp/q7C7bnUCl5/concat.3.0.vcf.gz /tmp/q7C7bnUCl5/concat.3.c.vcf.gz /tmp/q7C7bnUCl5/concat.3.d.vcf.gz /tmp/q7C7bnUCl5/concat.3.e.vcf.gz /tmp/q7C7bnUCl5/concat.3.f.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/q7C7bnUCl5/concat.3.a.vcf.gz /tmp/q7C7bnUCl5/concat.3.b.vcf.gz /tmp/q7C7bnUCl5/concat.3.0.vcf.gz /tmp/q7C7bnUCl5/concat.3.c.vcf.gz /tmp/q7C7bnUCl5/concat.3.d.vcf.gz /tmp/q7C7bnUCl5/concat.3.e.vcf.gz /tmp/q7C7bnUCl5/concat.3.f.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/q7C7bnUCl5/concat.3.a.bcf /tmp/q7C7bnUCl5/concat.3.b.bcf /tmp/q7C7bnUCl5/concat.3.0.bcf /tmp/q7C7bnUCl5/concat.3.c.bcf /tmp/q7C7bnUCl5/concat.3.d.bcf /tmp/q7C7bnUCl5/concat.3.e.bcf /tmp/q7C7bnUCl5/concat.3.f.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/q7C7bnUCl5/concat.3.a.bcf /tmp/q7C7bnUCl5/concat.3.b.bcf /tmp/q7C7bnUCl5/concat.3.0.bcf /tmp/q7C7bnUCl5/concat.3.c.bcf /tmp/q7C7bnUCl5/concat.3.d.bcf /tmp/q7C7bnUCl5/concat.3.e.bcf /tmp/q7C7bnUCl5/concat.3.f.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
Random seed for test_naive_concat: 1654579399
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --naive-force /tmp/q7C7bnUCl5/naive_concat.0.bcf /tmp/q7C7bnUCl5/naive_concat.1.bcf /tmp/q7C7bnUCl5/naive_concat.2.bcf /tmp/q7C7bnUCl5/naive_concat.3.bcf /tmp/q7C7bnUCl5/naive_concat.4.bcf /tmp/q7C7bnUCl5/naive_concat.5.bcf /tmp/q7C7bnUCl5/naive_concat.6.bcf /tmp/q7C7bnUCl5/naive_concat.7.bcf /tmp/q7C7bnUCl5/naive_concat.8.bcf /tmp/q7C7bnUCl5/naive_concat.9.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --naive /tmp/q7C7bnUCl5/naive_concat.0.vcf.gz /tmp/q7C7bnUCl5/naive_concat.1.vcf.gz /tmp/q7C7bnUCl5/naive_concat.2.vcf.gz /tmp/q7C7bnUCl5/naive_concat.3.vcf.gz /tmp/q7C7bnUCl5/naive_concat.4.vcf.gz /tmp/q7C7bnUCl5/naive_concat.5.vcf.gz /tmp/q7C7bnUCl5/naive_concat.6.vcf.gz /tmp/q7C7bnUCl5/naive_concat.7.vcf.gz /tmp/q7C7bnUCl5/naive_concat.8.vcf.gz /tmp/q7C7bnUCl5/naive_concat.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -l  /tmp/q7C7bnUCl5/concat.4.a.vcf.gz /tmp/q7C7bnUCl5/concat.4.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l  /tmp/q7C7bnUCl5/concat.4.a.vcf.gz /tmp/q7C7bnUCl5/concat.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -l  /tmp/q7C7bnUCl5/concat.4.a.bcf /tmp/q7C7bnUCl5/concat.4.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l  /tmp/q7C7bnUCl5/concat.4.a.bcf /tmp/q7C7bnUCl5/concat.4.b.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/q7C7bnUCl5/concat.5.a.vcf.gz /tmp/q7C7bnUCl5/concat.5.b.vcf.gz /tmp/q7C7bnUCl5/concat.5.c.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/q7C7bnUCl5/concat.5.a.vcf.gz /tmp/q7C7bnUCl5/concat.5.b.vcf.gz /tmp/q7C7bnUCl5/concat.5.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/q7C7bnUCl5/concat.5.a.bcf /tmp/q7C7bnUCl5/concat.5.b.bcf /tmp/q7C7bnUCl5/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/q7C7bnUCl5/concat.5.a.bcf /tmp/q7C7bnUCl5/concat.5.b.bcf /tmp/q7C7bnUCl5/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -l --ligate-force  /tmp/q7C7bnUCl5/concat.5.a.bcf /tmp/q7C7bnUCl5/concat.5.b.bcf /tmp/q7C7bnUCl5/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l --ligate-force  /tmp/q7C7bnUCl5/concat.5.a.bcf /tmp/q7C7bnUCl5/concat.5.b.bcf /tmp/q7C7bnUCl5/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -G -a -D  /tmp/q7C7bnUCl5/concat.5.a.vcf.gz /tmp/q7C7bnUCl5/concat.5.b.vcf.gz /tmp/q7C7bnUCl5/concat.5.c.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -G -a -D  /tmp/q7C7bnUCl5/concat.5.a.vcf.gz /tmp/q7C7bnUCl5/concat.5.b.vcf.gz /tmp/q7C7bnUCl5/concat.5.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --no-version -G -a -D  /tmp/q7C7bnUCl5/concat.5.a.bcf /tmp/q7C7bnUCl5/concat.5.b.bcf /tmp/q7C7bnUCl5/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -G -a -D  /tmp/q7C7bnUCl5/concat.5.a.bcf /tmp/q7C7bnUCl5/concat.5.b.bcf /tmp/q7C7bnUCl5/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.hdr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.hdr /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.hdr /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -n AAA,BBB /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -n AAA,BBB /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -n AAA,BBB /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples2 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples2 /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples2 /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples3 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples3 /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples3 /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples4 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples4 /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples4 /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.empty.hdr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/empty.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/empty.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.empty.hdr /tmp/q7C7bnUCl5/empty.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/empty.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.empty.hdr /tmp/q7C7bnUCl5/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/q7C7bnUCl5/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.fai /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.fai /tmp/q7C7bnUCl5/reheader.2.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.fai /tmp/q7C7bnUCl5/reheader.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.fai /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.fai /tmp/q7C7bnUCl5/reheader.2.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.fai /tmp/q7C7bnUCl5/reheader.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.3.fai /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.3.fai /tmp/q7C7bnUCl5/reheader.3.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/reheader.3.fai /tmp/q7C7bnUCl5/reheader.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate --rename-chrs /tmp/q7C7bnUCl5/rename.map -Ov /tmp/q7C7bnUCl5/annotate.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate --rename-chrs /tmp/q7C7bnUCl5/rename.map -Ob /tmp/q7C7bnUCl5/annotate.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate --rename-chrs /tmp/q7C7bnUCl5/rename.map -Ov /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate --rename-chrs /tmp/q7C7bnUCl5/rename.map -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --vcf-ids /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --vcf-ids --3N6 /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --vcf-ids --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,-
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert  --vcf-ids -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert  --vcf-ids -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --3N6 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.3N6.gen,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --3N6 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.3N6.gen,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --vcf-ids -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --vcf-ids -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --tag PL /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --tag PL
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- --tag PL /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- --tag PL
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --vcf-ids /tmp/q7C7bnUCl5/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- --vcf-ids /tmp/q7C7bnUCl5/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --3N6 /tmp/q7C7bnUCl5/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- --3N6 /tmp/q7C7bnUCl5/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --3N6 --vcf-ids /tmp/q7C7bnUCl5/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g -,. --3N6 --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- --3N6 --vcf-ids /tmp/q7C7bnUCl5/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -g .,- --3N6 --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -h -,.,. /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -h -,.,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -h .,-,. /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -h .,-,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -h .,-,. --vcf-ids /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -h .,-,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -h .,.,- /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -h .,.,-
.. ok

test_vcf_convert_hls2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -H /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hls.gt.hap,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hls.gt.legend,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hls.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hls2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -H /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hls.gt.hap,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hls.gt.legend,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hls.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --haplegendsample -,.,. /tmp/q7C7bnUCl5/convert.hap-missing.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.hap-missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --haplegendsample -,.,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --hapsample -,. /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --hapsample -,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --hapsample -,. --vcf-ids /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --hapsample -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --hapsample .,- /tmp/q7C7bnUCl5/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --hapsample .,-
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --hapsample2vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hs.gt.hap,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --hapsample2vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hs.gt.hap,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --vcf-ids --hapsample2vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hs.gt.ids.hap,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --vcf-ids --hapsample2vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hs.gt.ids.hap,/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.hs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/convert.gvcf.vcf.gz
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa /tmp/q7C7bnUCl5/convert.gvcf.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/q7C7bnUCl5/convert.gvcf.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gvcf.fa | grep -v ^##bcftools
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --no-version  -c ID,CHROM,POS,AA -s SAMPLE1 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.23andme
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -Ou  -c ID,CHROM,POS,AA -s SAMPLE1 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.23andme | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert --no-version  -c -,CHROM,POS,REF,ALT -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.tsv
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools convert -Ou  -c -,CHROM,POS,REF,ALT -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/convert.tsv | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.gvcf-missing.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.gvcf-missing.fa --missing N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.gvcf-missing.1.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.gvcf-missing.fa --missing N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.2.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.2.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.1.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.1.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.1.fa -s B  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.1.fa -s B  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.1.fa -s A -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.1.fa -s A -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.1.fa -s B -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.overlaps.1.fa -s B -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.beyond.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.beyond.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.beyond.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.beyond.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab -c /tmp/q7C7bnUCl5/consensus.1.chain.new >/dev/null; cat /tmp/q7C7bnUCl5/consensus.1.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab -c /tmp/q7C7bnUCl5/consensus.2.chain.new >/dev/null; cat /tmp/q7C7bnUCl5/consensus.2.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -I -s - -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -I -s - -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -I -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab --mask-with X -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab --mask-with lc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -I -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab --mask-with X -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab --mask-with lc  
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -I -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.tab -c /tmp/q7C7bnUCl5/consensus.3.chain.new >/dev/null; cat /tmp/q7C7bnUCl5/consensus.3.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H 1  
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H 1  -c /tmp/q7C7bnUCl5/consensus.4.chain.new >/dev/null; cat /tmp/q7C7bnUCl5/consensus.4.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus2.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus2.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/empty.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/empty.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -H 2 -M "?"  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus3.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -H 2 -M "?"  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -H 2 -M "?" -p xx_  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus3.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -H 2 -M "?" -p xx_  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus4.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus4.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus5.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus5.fa --haplotype LA  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus5.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus5.fa --haplotype LA  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus6.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus6.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus6.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 4  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 4  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 2pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 2pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 4pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 4pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 3  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 3  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 1pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 1pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 3pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus7.fa -H 3pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP>15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP>15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP<15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP<15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.9.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.9.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.9.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.9.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.10.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.10.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.10.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.10.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.11.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.11.fa -s smpl  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.11.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.11.fa -s smpl  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.11.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.11.fa -s smpl -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.11.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.11.fa -s smpl -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.12.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.12.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.13.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.13.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.13.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.13.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.14.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.14.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.14.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.14.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.15.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.15.bcf    -f /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.16.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.16.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -s - -I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.16.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.16.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.17.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -s - -M N -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.17.bed 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.17.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus2.fa -s - -M N -m /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.17.bed 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.18.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.18.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.18.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.18.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.19.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.19.fa -s -   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.19.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.19.fa -s -   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -M . -s b  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -M . -s b  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -M . -s a  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -M . -s a  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.b.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.b.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.a.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.20.a.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.21.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.21.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.21.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.21.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 0 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 0 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 1 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 1 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 2 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 2 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 0  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 0  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/q7C7bnUCl5/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.22.fa --regions-overlap 2  
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r 11:10-20 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/iupac.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/iupac.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r 11:10-20 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/iupac.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/iupac.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/q7C7bnUCl5/mpileup.bam.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/q7C7bnUCl5/mpileup.bam.urllist | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/q7C7bnUCl5/mpileup.cram.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/q7C7bnUCl5/mpileup.cram.urllist | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/q7C7bnUCl5/mpileup.bam.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/q7C7bnUCl5/mpileup.bam.urllist | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/q7C7bnUCl5/mpileup.cram.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/q7C7bnUCl5/mpileup.cram.urllist | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.1.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.cram | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-set READ1 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-set READ1 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-unset READ1 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-unset READ1 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-unset READ1 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-unset READ1 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr19:69-99 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.1.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr19:69-99 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.1.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.1.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr6:75 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.2.fa /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr6:75 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.2.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.2.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr16:75 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.3.fa /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.3.1.bam /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr16:75 -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.3.fa -Ob /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.3.1.bam /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/mpileup/annot-NMBZ.3.2.bam | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.gff3 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.chr.gff3 --unify-chr-names -,chr,- /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.2.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.2.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.2.gff --ncsq 64 /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.2.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.fa --unify-chr-names -,-,- /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.fa --unify-chr-names -,-,chr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.fa --unify-chr-names -,chr,- /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.fa --unify-chr-names -,chr,chr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.fa --unify-chr-names chr,chr,chr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.fa --unify-chr-names chr,-,chr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.fa --unify-chr-names chr,chr,- /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.fa --unify-chr-names chr,-,- /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.nchr.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.ychr.gff --unify-chr-names Chromosome,chr,- /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq.yychr.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000303039/not-a-stop.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000303039/not-a-stop.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000593942/ENST00000593942.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000593942/ENST00000593942.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000593942/last-codon-deletion.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000528237/ENST00000528237.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000528237/ENST00000528237.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000528237/retained-stop-incomplete-cds.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000422159 && /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000422159.fa -g ENST00000422159.gff multiallelic.vcf  | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f ENST00000422159.fa -g short.gff multiallelic.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000390520/ENST00000390520.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000390520/ENST00000390520.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000390520/deletion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000543077/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000543077/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/EMN908947 && /builddir/build/BUILD/bcftools-1.23-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-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-build/bcftools-1.23/test/csq/EMN908947 && /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f EMN908947.fa -g simple.gff simple.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000379416 && /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff single.vcf                 | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000301246/ENST00000301246.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000301246/ENST00000301246.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000301246/15bp-insert.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000295641/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000295641/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/valgrind.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000571540/ENST00000571540.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000571540/ENST00000571540.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000571540/nmd.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000285021/ENST00000285021.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000285021/ENST00000285021.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000285021/stop-gained-inframe-indel.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000479739/short-cds-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000479739/short-cds-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000357367/ENST00000357367.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000357367/ENST00000357367.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000357367/stop-retained.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000230048/ENST00000230048.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000230048/ENST00000230048.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000230048/start-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000542803/splice-region.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000542803/splice-region.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/frame2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/frame2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/frame1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/frame1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/frame3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/frame3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000368801.2 && /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%BCSQ\n' | ../sort-csq -q
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000368801.2 && /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools query -f'%BCSQ\n' | ../sort-csq -q
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000368801.2/ENST00000368801.2.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000368801.2/ENST00000368801.2.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000368801.2/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000518414/ENST00000518414.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000518414/ENST00000518414.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000518414/incorrect-inframe-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000382647/ENST00000382647.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000382647/ENST00000382647.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000382647/synon-splice-region-insert.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0001/starts-with-1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0001/starts-with-1.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000000001 && /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000000001 && /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000000001.fa -g ENST00000000001.gff test.vcf -p a | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000400151/ENST00000400151.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000400151/ENST00000400151.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000400151/long-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000580206 && /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff single.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520795/long-inside-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520795/long-inside-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000519442/ENST00000519442.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000519442/ENST00000519442.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000519442/synon-splice-region-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420190/ENST00000420190.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420190/ENST00000420190.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420190/abort-in-csq-push.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000557788/ENST00000557788.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000557788/ENST00000557788.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000557788/long-overlap-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0003/EDUMMY0003.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0003/EDUMMY0003.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0003/long-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENSMUST00000133836 && /builddir/build/BUILD/bcftools-1.23-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-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000436063/ENST00000436063.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000436063/ENST00000436063.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000436063/insert-before-utr.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000375992/ENST00000375992.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000375992/ENST00000375992.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000375992/incorrect-synon-del-not-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249.2/ENST00000318249.2.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249.2/ENST00000318249.2.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249.2/synonymous-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23-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-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-build/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23-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-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-build/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23-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-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0002/EDUMMY0002.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0002/EDUMMY0002.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/EDUMMY0002/boundaries.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000269081/ENST00000269081.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000269081/ENST00000269081.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000269081/stop-gained-not-inframe-insertion.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000271583/ENST00000271583.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000271583/ENST00000271583.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000271583/splice-acceptor.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000294661/non-coding-boundary.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000294661/non-coding-boundary.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000256452/ENST00000256452.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000256452/ENST00000256452.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000256452/intron.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENSCAFT00000047742/ENSCAFT00000047742.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENSCAFT00000047742/ENSCAFT00000047742.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENSCAFT00000047742/test.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573035-bt2212/complex-event.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000227471/ENST00000227471.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000227471/ENST00000227471.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000227471/insert-splice-vs-frameshift.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000373833/boundary-insertion.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000373833/boundary-insertion.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000318249/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000624631/ENST00000624631.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000624631/ENST00000624631.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000624631/ambiguous.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -b -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -B 5 -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -lb -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000410009/ENST00000410009.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000410009/ENST00000410009.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000410009/frameshift.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000360372/ENST00000360372.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000360372/ENST00000360372.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000360372/mnp.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000409523/ENST00000409523.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000409523/ENST00000409523.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000409523/long-overlapping-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/start-lost-del.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000218032/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/snps.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/snps.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/insert3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000423372/insert3.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000545279/ENST00000545279.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000545279/ENST00000545279.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000545279/splice-region-insert.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420670/start-stop-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000420670/segfault.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000381157/ENST00000381157.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000381157/ENST00000381157.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000381157/haploid-diploid.vcf | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520868/ENST00000520868.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520868/ENST00000520868.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000520868/long-deletion.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000368801/ENST00000368801.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000368801/ENST00000368801.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000368801/compound-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000448695/ENST00000448695.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000448695/ENST00000448695.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000448695/syn-and-splice-reg.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000378322/end-overlap-tscript.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000378322/end-overlap-tscript.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000329454/boundary-deletion.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000329454/boundary-deletion.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENSG00000173376/ENSG00000173376.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENSG00000173376/ENSG00000173376.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENSG00000173376/synon.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000413103/ENST00000413103.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000413103/ENST00000413103.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000413103/long-deletion.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000536784/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000536784/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/test/csq/ENST00000000000 && /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools csq -p a -f ENST00000000000.fa -g ENST00000000000.gff upstream-stop.vcf  | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000263103-INS/ENST00000263103-INS.fa -g /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000263103-INS/ENST00000263103-INS.gff /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/ENST00000263103-INS/insertions.vcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/roh.1.vcf.gz -Or -G30 --AF-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/roh.1.tab.gz| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/roh.1.vcf.gz -Or -G30 --AF-file /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/roh.1.tab.gz --ignore-homref| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23-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-build/bcftools-1.23/bcftools gtcheck --keep-refs /tmp/q7C7bnUCl5/gtcheck.gvcf.a.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.gvcf.b.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck --keep-refs /tmp/q7C7bnUCl5/gtcheck.gvcf.b.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.gvcf.a.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck  /tmp/q7C7bnUCl5/gtcheck.gvcf.a.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.gvcf.b.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck  /tmp/q7C7bnUCl5/gtcheck.gvcf.b.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.gvcf.a.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 --no-HWE-prob /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u GT,GT /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u GT,PL /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u PL,GT /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u PL,PL /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -p s1,s1 /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 /tmp/q7C7bnUCl5/gtcheck.2.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0  /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-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/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gtcheck.3.pairs /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u PL /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 --n-matches 4 /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO  | sort
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -s qry:E,D,C /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -s qry:E,D,C -u PL /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D -u PL /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D,C /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -p B,C,B,D /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u GT,GT -H /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u GT,PL -H /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u PL,GT -H /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -u PL,PL -H /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gtcheck.4.pairs --distinctive-sites 3 /tmp/q7C7bnUCl5/gtcheck.4.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/gtcheck.4.pairs --distinctive-sites 3,1 /tmp/q7C7bnUCl5/gtcheck.4.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -u GT -e 30 /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -u GT -e 300 /tmp/q7C7bnUCl5/gtcheck.1.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -u PL -e 30 /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck  /tmp/q7C7bnUCl5/gtcheck.ntop.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck --n-matches 2 /tmp/q7C7bnUCl5/gtcheck.ntop.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck  /tmp/q7C7bnUCl5/gtcheck.5.vcf.gz -g /tmp/q7C7bnUCl5/gtcheck.5.gts.vcf.gz | grep -v ^# | grep -v Time
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -p A,B,B,C /tmp/q7C7bnUCl5/gtcheck.6.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools gtcheck -t 11:33 -p A,D,A,E,D,E -u GT -e 10 /tmp/q7C7bnUCl5/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +vcf2table /tmp/q7C7bnUCl5/merge.4.b.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +vcf2table /tmp/q7C7bnUCl5/merge.4.b.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +vcf2table /tmp/q7C7bnUCl5/split-vep.2.vcf.gz  -- --hide 'INFO,URL' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools +vcf2table /tmp/q7C7bnUCl5/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.fc44.x86_64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.QRmfH6
+ umask 022
+ cd /builddir/build/BUILD/bcftools-1.23-build
+ cd bcftools-1.23
+ DOCDIR=/builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/doc/bcftools
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/doc/bcftools
+ cp -pr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/AUTHORS /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/doc/bcftools
+ cp -pr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/NEWS /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/doc/bcftools
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.g8d5Y0
+ umask 022
+ cd /builddir/build/BUILD/bcftools-1.23-build
+ cd bcftools-1.23
+ LICENSEDIR=/builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/licenses/bcftools
+ export LC_ALL=C.UTF-8
+ LC_ALL=C.UTF-8
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/licenses/bcftools
+ cp -pr /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/LICENSE /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT/usr/share/licenses/bcftools
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: bcftools = 1.23-1.fc44 bcftools(x86-64) = 1.23-1.fc44
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 glibc >= 2.42.9000-25 libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libgsl.so.28()(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_2.2.5)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.43)(64bit) libperl.so.5.42()(64bit) rtld(GNU_HASH)
Conflicts: samtools < 1.0
Processing files: bcftools-debugsource-1.23-1.fc44.x86_64
Provides: bcftools-debugsource = 1.23-1.fc44 bcftools-debugsource(x86-64) = 1.23-1.fc44
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.fc44.x86_64
Provides: bcftools-debuginfo = 1.23-1.fc44 bcftools-debuginfo(x86-64) = 1.23-1.fc44 debuginfo(build-id) = 0419d019a6cafe968f0c47e7c0edf095dba709dd debuginfo(build-id) = 0725d9ceb211af218b547417ac52b11aa711f3cc debuginfo(build-id) = 10d2936e2af8d176b3a190e544c1efedbd2a7d5b debuginfo(build-id) = 137e4e7904a1875c4a5bb91b1a3b752b732c6273 debuginfo(build-id) = 14b88f739a2c47b1c8282a2e56b6d0c474a63153 debuginfo(build-id) = 1c19476a6a675411a091ef291dc2847e4615e59f debuginfo(build-id) = 1cb94f14a4965a957c719b202c656198d9973ae5 debuginfo(build-id) = 1f4d8c351b529d26b9cd30f57e02bda499befc4d debuginfo(build-id) = 2025d45dadaa8c71ffa0adff28aeeea8803786a4 debuginfo(build-id) = 254cbad404e28ceaeb75be21842db96e8322291d debuginfo(build-id) = 278febc4b6122a362f1c2be32b6f82549bebd461 debuginfo(build-id) = 3b93628c60f6bc3ca9b44f8677b765d5352872ea debuginfo(build-id) = 3f8575e95d5f21fd147149c48953e50b64577962 debuginfo(build-id) = 48199add92a3c00ffb14d7f9f15baa0187c712ac debuginfo(build-id) = 49478d9df72f40cd05c44ec103aeec03e3333145 debuginfo(build-id) = 4fb659ec602cccc07e3d6ab22dd77cc7a40a4b27 debuginfo(build-id) = 5997d31214d6ee8add740767d96c431a078d745b debuginfo(build-id) = 5e96d698b80641a8d30e282a923fa116c79a0730 debuginfo(build-id) = 694bb27f9807bdd7a70791c682e5e1e8c9743c91 debuginfo(build-id) = 6c042210dd89bb90d55cfcd380bd7be3c9c6e281 debuginfo(build-id) = 6f9ccc21a0b1c096d2a76bb9aafd54caba39a4d1 debuginfo(build-id) = 721fdace4c5cbfcd9996ebaac0efb529280495bf debuginfo(build-id) = 768db0f901f6e6f038a2943f99deb9e4babe7bb1 debuginfo(build-id) = 804933ec1923375219397ddffa96fb8441e757da debuginfo(build-id) = 95ba7ab3d3f90deb4b5de08cd9149ab084a4a92c debuginfo(build-id) = a3a79599943a9dec9122090f276e3346d2a55eab debuginfo(build-id) = ae849427a48273fe3b0d7352c53b5d259378869e debuginfo(build-id) = b13e5c7a44d2fe107f788ec9c13b8f435f1b65d7 debuginfo(build-id) = b89b59108b8328aa9fb7bb8bda587b0b0dea4ced debuginfo(build-id) = c1b74d3fb859c680802eca0718802c5e80869c55 debuginfo(build-id) = cbfb4d2fb4bf55449e5d63753f8ca41622f66d64 debuginfo(build-id) = cffe555814482ef62dc66b55152a624732cd556b debuginfo(build-id) = d59ddf00ffde3b205a4a1ad5c02688042bb474c1 debuginfo(build-id) = e1569a332db20014d0342749dc807159ec3d939a debuginfo(build-id) = e2ef53b962c3e719b56e11546d483a756e118a83 debuginfo(build-id) = e9d1f39a6f3ef8e2a3b1601a6cd6f8717c8464b6 debuginfo(build-id) = ee46c91cae2894a1d42c30cbecc9b91f1dab65d2 debuginfo(build-id) = ee846469af44b3e1c04336531b3ef809874afa75 debuginfo(build-id) = fb40c7e679317bf0d83ed14eb7eb77f68bac6f7b debuginfo(build-id) = fca666716f93bcea703a8df2bbfd205e9ab064fb debuginfo(build-id) = fce50af565e1fc3d750de563378854adfe0bf73d debuginfo(build-id) = fe2414a1d9c9854a7f7a1a99e1c82d6fb93f9494
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: bcftools-debugsource(x86-64) = 1.23-1.fc44
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/bcftools-1.23-build/BUILDROOT
Wrote: /builddir/build/RPMS/bcftools-1.23-1.fc44.x86_64.rpm
Wrote: /builddir/build/RPMS/bcftools-debugsource-1.23-1.fc44.x86_64.rpm
Wrote: /builddir/build/RPMS/bcftools-debuginfo-1.23-1.fc44.x86_64.rpm
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.Q2eecG
+ umask 022
+ cd /builddir/build/BUILD/bcftools-1.23-build
+ test -d /builddir/build/BUILD/bcftools-1.23-build
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/bcftools-1.23-build
+ rm -rf /builddir/build/BUILD/bcftools-1.23-build
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild bcftools-1.23-1.fc44.src.rpm
Finish: build phase for bcftools-1.23-1.fc44.src.rpm
INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-x86_64-1769501980.264018/root/var/log/dnf5.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
INFO: Done(/var/lib/copr-rpmbuild/results/bcftools-1.23-1.fc44.src.rpm) Config(child) 1 minutes 23 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
Finish: run
Running RPMResults tool
Package info:
{
    "packages": [
        {
            "name": "bcftools",
            "epoch": null,
            "version": "1.23",
            "release": "1.fc44",
            "arch": "src"
        },
        {
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RPMResults finished