Warning: Permanently added '18.207.188.158' (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-aarch64 --chroot fedora-rawhide-aarch64


Version: 1.6
PID: 23046
Logging PID: 23048
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': False,
 'build_id': 10066103,
 'buildroot_pkgs': [],
 'chroot': 'fedora-rawhide-aarch64',
 '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-aarch64/',
            '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-aarch64',
 '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-r2ajdm7e/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-r2ajdm7e/bcftools', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-r2ajdm7e/bcftools'...

Running: git checkout ef1e765a1035b0f2dd26cbdff692764fa901e898 --

cmd: ['git', 'checkout', 'ef1e765a1035b0f2dd26cbdff692764fa901e898', '--']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-r2ajdm7e/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-r2ajdm7e/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  16.3M      0 --:--:-- --:--:-- --:--:-- 16.3M
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-r2ajdm7e/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-r2ajdm7e/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1769501915.580116 -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-r2ajdm7e/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-r2ajdm7e/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1769501915.580116 -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-r2ajdm7e/bcftools/bcftools.spec)  Config(fedora-rawhide-aarch64)
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-aarch64-bootstrap-1769501915.580116/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-c71faac5-1d2e-4b52-aeee-dd263dcc25ee
INFO: Checking that ada545071707428d4e9e51ee4055b80dbe0152a0d651ff91d5a4f1d06af5a8df image matches host's architecture
INFO: Copy content of container ada545071707428d4e9e51ee4055b80dbe0152a0d651ff91d5a4f1d06af5a8df to /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1769501915.580116/root
INFO: mounting ada545071707428d4e9e51ee4055b80dbe0152a0d651ff91d5a4f1d06af5a8df with podman image mount
INFO: image ada545071707428d4e9e51ee4055b80dbe0152a0d651ff91d5a4f1d06af5a8df as /var/lib/containers/storage/overlay/0c33bae2a56b903472f969cc6f570bda0d2f4bb373df30b20261dbe4e686575a/merged
INFO: umounting image ada545071707428d4e9e51ee4055b80dbe0152a0d651ff91d5a4f1d06af5a8df (/var/lib/containers/storage/overlay/0c33bae2a56b903472f969cc6f570bda0d2f4bb373df30b20261dbe4e686575a/merged) with podman image umount
INFO: Removing image mock-bootstrap-c71faac5-1d2e-4b52-aeee-dd263dcc25ee
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-aarch64-1769501915.580116/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.aarch64
  rpm-sequoia-1.10.0-2.fc44.aarch64
  dnf5-5.3.0.0-7.fc44.aarch64
  dnf5-plugins-5.3.0.0-7.fc44.aarch64
Start: installing minimal buildroot with dnf5
Updating and loading repositories:
 Copr repository                        100% |  12.5 KiB/s |   5.1 KiB |  00m00s
 fedora                                 100% |  21.3 MiB/s |  21.0 MiB |  00m01s
>>> Downloading successful, but checksum doesn't match. Calculated: e17f8fdd8035a6a65a18124c9e0cdacd9a36a3778f925b92d369ce9b05fe748b833c6f01b7c1b5843b1ce0d2f3d59d9997fbdd0e0d16ce1698b76060abc4377a(sha512) e17f8fdd8035a6a65a18124c9e0cdacd9a36a3778f925b92d369ce9b05fe748b833c6f01b7c1b5843b1ce0d2f3d59d9997fbdd0e0d16ce1698b76060abc4377a(sha512) e17f8fdd8035a6a65a18124c9e0cdacd9a36a3778f925b92d369ce9b05fe748b833c6f01b7c1b5843b1ce0d2f3d59d9997fbdd0e0d16ce1698b76060abc4377a(sha512)  Expected: a5bbe98c789d564777385f7674b272b5ccd2bbf16d70ed18695d514c759af794e91b75ac3f6a6651a0188522c9e009473924736f2e6e3f7dedf13af35a225a59(sha512) 059204aa309f82b903732165ec6fb037e12d07ba6fe2a9dec4167b372a3ae45dbb7e7d4dd8c17bb827f38296fbb6088b6fe5cf49f6f441eb87a33c7db52dc6a1(sha512) b5db7037146d905af9cc95c83fbc3b2ba51c5834b3925c59b46e2c0f3d9a23687183db37af536425f1dcb62ebfd2fe2c46c685b5786bec5c884e31963cff5137(sha512)  - https://d2lzkl7pfhq30w.cloudfront.net/pub/fedora/linux/development/rawhide/Everything/aarch64/os/repodata/repomd.xml
Repositories loaded.
Package                            Arch    Version                      Repository      Size
Installing group/module packages:
 bash                              aarch64 0:5.3.9-3.fc44               fedora       8.4 MiB
 bzip2                             aarch64 0:1.0.8-23.fc44              fedora     171.1 KiB
 coreutils                         aarch64 0:9.9-4.fc44                 fedora       8.1 MiB
 cpio                              aarch64 0:2.15-6.fc43                fedora       1.1 MiB
 diffutils                         aarch64 0:3.12-5.fc44                fedora       1.6 MiB
 fedora-release-common             noarch  0:44-0.10                    fedora      20.6 KiB
 findutils                         aarch64 1:4.10.0-7.fc44              fedora       1.9 MiB
 gawk                              aarch64 0:5.3.2-3.fc44               fedora       2.6 MiB
 glibc-minimal-langpack            aarch64 0:2.42.9000-25.fc44          fedora       0.0   B
 grep                              aarch64 0:3.12-3.fc44                fedora       1.0 MiB
 gzip                              aarch64 0:1.14-2.fc44                fedora     437.5 KiB
 info                              aarch64 0:7.2-7.fc44                 fedora     421.6 KiB
 patch                             aarch64 0:2.8-4.fc44                 fedora     262.4 KiB
 redhat-rpm-config                 noarch  0:343-19.fc44                fedora     183.6 KiB
 rpm-build                         aarch64 0:6.0.1-2.fc44               fedora     598.3 KiB
 sed                               aarch64 0:4.9-7.fc44                 fedora     873.1 KiB
 shadow-utils                      aarch64 2:4.18.0-7.fc44              fedora       4.4 MiB
 tar                               aarch64 2:1.35-8.fc44                fedora       3.0 MiB
 unzip                             aarch64 0:6.0-69.fc44                fedora     533.8 KiB
 util-linux                        aarch64 0:2.41.3-12.fc44             fedora       6.8 MiB
 which                             aarch64 0:2.23-4.fc44                fedora     123.3 KiB
 xz                                aarch64 1:5.8.2-2.fc44               fedora       1.4 MiB
Installing dependencies:
 R-srpm-macros                     noarch  0:1.3.4-3.fc44               fedora       3.4 KiB
 add-determinism                   aarch64 0:0.7.2-3.fc44               fedora       2.0 MiB
 alternatives                      aarch64 0:1.33-5.fc44                fedora      90.1 KiB
 ansible-srpm-macros               noarch  0:1-20.1.fc44                fedora      35.7 KiB
 audit-libs                        aarch64 0:4.1.2-4.fc44               fedora     486.5 KiB
 binutils                          aarch64 0:2.45.50-19.fc44            fedora      30.7 MiB
 build-reproducibility-srpm-macros noarch  0:0.7.2-3.fc44               fedora       1.2 KiB
 bzip2-libs                        aarch64 0:1.0.8-23.fc44              fedora      72.5 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                  aarch64 0:9.9-4.fc44                 fedora      11.2 MiB
 crypto-policies                   noarch  0:20251128-3.git19878fe.fc44 fedora     132.6 KiB
 curl                              aarch64 0:8.18.0-3.fc44              fedora     464.1 KiB
 cyrus-sasl-lib                    aarch64 0:2.1.28-35.fc44             fedora       2.4 MiB
 debugedit                         aarch64 0:5.2-6.fc44                 fedora     318.3 KiB
 dwz                               aarch64 0:0.16-3.fc44                fedora     322.4 KiB
 ed                                aarch64 0:1.22.4-2.fc44              fedora     157.1 KiB
 efi-srpm-macros                   noarch  0:6-6.fc44                   fedora      40.2 KiB
 elfutils                          aarch64 0:0.194-3.fc44               fedora       3.3 MiB
 elfutils-debuginfod-client        aarch64 0:0.194-3.fc44               fedora     143.7 KiB
 elfutils-default-yama-scope       noarch  0:0.194-3.fc44               fedora       1.8 KiB
 elfutils-libelf                   aarch64 0:0.194-3.fc44               fedora       1.1 MiB
 elfutils-libs                     aarch64 0:0.194-3.fc44               fedora     746.4 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                              aarch64 0:5.46-9.fc44                fedora     140.1 KiB
 file-libs                         aarch64 0:5.46-9.fc44                fedora      11.9 MiB
 filesystem                        aarch64 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                       aarch64 0:17.1-2.fc44                fedora      13.7 MiB
 gdbm-libs                         aarch64 1:1.23-11.fc44               fedora     233.7 KiB
 ghc-srpm-macros                   noarch  0:1.9.2-4.fc44               fedora     779.0   B
 glibc                             aarch64 0:2.42.9000-25.fc44          fedora       6.4 MiB
 glibc-common                      aarch64 0:2.42.9000-25.fc44          fedora       1.3 MiB
 glibc-gconv-extra                 aarch64 0:2.42.9000-25.fc44          fedora      18.5 MiB
 gmp                               aarch64 1:6.3.0-5.fc44               fedora     657.9 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                            aarch64 0:2.4.9-4.fc44               fedora       6.4 MiB
 gnupg2-dirmngr                    aarch64 0:2.4.9-4.fc44               fedora     646.1 KiB
 gnupg2-gpg-agent                  aarch64 0:2.4.9-4.fc44               fedora     846.6 KiB
 gnupg2-gpgconf                    aarch64 0:2.4.9-4.fc44               fedora     321.7 KiB
 gnupg2-keyboxd                    aarch64 0:2.4.9-4.fc44               fedora     233.2 KiB
 gnupg2-verify                     aarch64 0:2.4.9-4.fc44               fedora     364.3 KiB
 gnutls                            aarch64 0:3.8.11-10.fc44             fedora       3.6 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                aarch64 0:1.6.2-8.fc44               fedora      92.6 KiB
 jansson                           aarch64 0:2.14-4.fc44                fedora      93.0 KiB
 java-srpm-macros                  noarch  0:1-8.fc44                   fedora     870.0   B
 json-c                            aarch64 0:0.18-8.fc44                fedora     138.5 KiB
 kernel-srpm-macros                noarch  0:1.0-28.fc44                fedora       1.9 KiB
 keyutils-libs                     aarch64 0:1.6.3-7.fc44               fedora      98.2 KiB
 krb5-libs                         aarch64 0:1.21.3-12.fc44             fedora       2.5 MiB
 libacl                            aarch64 0:2.3.2-6.fc44               fedora      67.8 KiB
 libarchive                        aarch64 0:3.8.4-2.fc44               fedora     975.1 KiB
 libassuan                         aarch64 0:2.5.7-5.fc44               fedora     215.8 KiB
 libattr                           aarch64 0:2.5.2-8.fc44               fedora      68.3 KiB
 libblkid                          aarch64 0:2.41.3-12.fc44             fedora     290.3 KiB
 libbrotli                         aarch64 0:1.2.0-3.fc44               fedora     909.1 KiB
 libcap                            aarch64 0:2.77-2.fc44                fedora     508.0 KiB
 libcap-ng                         aarch64 0:0.9-5.fc44                 fedora     160.7 KiB
 libcom_err                        aarch64 0:1.47.3-4.fc44              fedora     111.0 KiB
 libcurl                           aarch64 0:8.18.0-3.fc44              fedora     980.9 KiB
 libeconf                          aarch64 0:0.7.9-3.fc44               fedora      80.8 KiB
 libevent                          aarch64 0:2.1.12-17.fc44             fedora       1.1 MiB
 libfdisk                          aarch64 0:2.41.3-12.fc44             fedora     418.7 KiB
 libffi                            aarch64 0:3.5.2-2.fc44               fedora     155.7 KiB
 libfsverity                       aarch64 0:1.6-4.fc44                 fedora      68.4 KiB
 libgcc                            aarch64 0:16.0.1-0.3.fc44.1          fedora     222.2 KiB
 libgcrypt                         aarch64 0:1.11.2-1.fc44              fedora       1.2 MiB
 libgomp                           aarch64 0:16.0.1-0.3.fc44.1          fedora     590.9 KiB
 libgpg-error                      aarch64 0:1.58-2.fc44                fedora     989.6 KiB
 libidn2                           aarch64 0:2.3.8-3.fc44               fedora     560.4 KiB
 libksba                           aarch64 0:1.6.7-5.fc44               fedora     398.3 KiB
 liblastlog2                       aarch64 0:2.41.3-12.fc44             fedora     137.7 KiB
 libmount                          aarch64 0:2.41.3-12.fc44             fedora     420.0 KiB
 libnghttp2                        aarch64 0:1.68.0-3.fc44              fedora     197.9 KiB
 libnghttp3                        aarch64 0:1.15.0-1.fc44              fedora     206.6 KiB
 libpkgconf                        aarch64 0:2.3.0-4.fc44               fedora     133.9 KiB
 libpsl                            aarch64 0:0.21.5-7.fc44              fedora     132.3 KiB
 libselinux                        aarch64 0:3.9-7.fc44                 fedora     201.0 KiB
 libselinux-utils                  aarch64 0:3.9-7.fc44                 fedora       1.3 MiB
 libsemanage                       aarch64 0:3.9-5.fc44                 fedora     359.9 KiB
 libsepol                          aarch64 0:3.9-3.fc44                 fedora     809.6 KiB
 libsmartcols                      aarch64 0:2.41.3-12.fc44             fedora     224.4 KiB
 libssh                            aarch64 0:0.11.3-1.fc44              fedora     587.0 KiB
 libssh-config                     noarch  0:0.11.3-1.fc44              fedora     277.0   B
 libstdc++                         aarch64 0:16.0.1-0.3.fc44.1          fedora       2.8 MiB
 libtasn1                          aarch64 0:4.20.0-3.fc44              fedora     220.2 KiB
 libtool-ltdl                      aarch64 0:2.5.4-10.fc44              fedora      93.9 KiB
 libunistring                      aarch64 0:1.1-11.fc44                fedora       1.7 MiB
 libusb1                           aarch64 0:1.0.29-5.fc44              fedora     178.8 KiB
 libuuid                           aarch64 0:2.41.3-12.fc44             fedora      69.3 KiB
 libverto                          aarch64 0:0.3.2-12.fc44              fedora      69.3 KiB
 libxcrypt                         aarch64 0:4.5.2-3.fc44               fedora     273.2 KiB
 libxml2                           aarch64 0:2.12.10-6.fc44             fedora       1.9 MiB
 libzstd                           aarch64 0:1.5.7-5.fc44               fedora     860.2 KiB
 linkdupes                         aarch64 0:0.7.2-3.fc44               fedora     779.1 KiB
 lua-libs                          aarch64 0:5.4.8-5.fc44               fedora     329.8 KiB
 lua-srpm-macros                   noarch  0:1-17.fc44                  fedora       1.3 KiB
 lz4-libs                          aarch64 0:1.10.0-4.fc44              fedora     197.3 KiB
 mpfr                              aarch64 0:4.2.2-3.fc44               fedora     755.4 KiB
 ncurses-base                      noarch  0:6.5-9.20250614.fc44        fedora     328.1 KiB
 ncurses-libs                      aarch64 0:6.5-9.20250614.fc44        fedora       1.2 MiB
 nettle                            aarch64 0:3.10.1-3.fc44              fedora     765.0 KiB
 ngtcp2                            aarch64 0:1.19.0-2.fc44              fedora     341.0 KiB
 ngtcp2-crypto-ossl                aarch64 0:1.19.0-2.fc44              fedora      67.4 KiB
 npth                              aarch64 0:1.8-4.fc44                 fedora      93.3 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                          aarch64 0:2.6.10-7.fc44              fedora     761.6 KiB
 openssl-libs                      aarch64 1:3.5.4-2.fc44               fedora       7.4 MiB
 p11-kit                           aarch64 0:0.25.8-2.fc44              fedora       2.5 MiB
 p11-kit-trust                     aarch64 0:0.25.8-2.fc44              fedora     530.0 KiB
 package-notes-srpm-macros         noarch  0:0.5-15.fc44                fedora       1.6 KiB
 pam-libs                          aarch64 0:1.7.2-1.fc44               fedora     222.6 KiB
 pcre2                             aarch64 0:10.47-1.fc44.1             fedora     714.3 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                           aarch64 0:2.3.0-4.fc44               fedora     112.3 KiB
 pkgconf-m4                        noarch  0:2.3.0-4.fc44               fedora      14.4 KiB
 pkgconf-pkg-config                aarch64 0:2.3.0-4.fc44               fedora     990.0   B
 policycoreutils                   aarch64 0:3.9-8.fc44                 fedora       1.5 MiB
 popt                              aarch64 0:1.19-10.fc44               fedora     144.6 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                          aarch64 0:8.3-4.fc44                 fedora     563.5 KiB
 rpm                               aarch64 0:6.0.1-2.fc44               fedora       3.3 MiB
 rpm-build-libs                    aarch64 0:6.0.1-2.fc44               fedora     264.0 KiB
 rpm-libs                          aarch64 0:6.0.1-2.fc44               fedora     995.0 KiB
 rpm-plugin-selinux                aarch64 0:6.0.1-2.fc44               fedora      67.9 KiB
 rpm-sequoia                       aarch64 0:1.10.0-2.fc44              fedora       2.3 MiB
 rpm-sign-libs                     aarch64 0:6.0.1-2.fc44               fedora      67.6 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                       aarch64 0:3.51.2-1.fc44              fedora       1.6 MiB
 systemd-libs                      aarch64 0:259-9.fc44                 fedora       2.5 MiB
 systemd-standalone-sysusers       aarch64 0:259-9.fc44                 fedora     329.5 KiB
 tpm2-tss                          aarch64 0:4.1.3-9.fc44               fedora       2.1 MiB
 tree-sitter-srpm-macros           noarch  0:0.4.2-2.fc44               fedora       8.3 KiB
 util-linux-core                   aarch64 0:2.41.3-12.fc44             fedora       2.4 MiB
 xxhash-libs                       aarch64 0:0.8.3-4.fc44               fedora      85.8 KiB
 xz-libs                           aarch64 1:5.8.2-2.fc44               fedora     265.4 KiB
 zig-srpm-macros                   noarch  0:1-8.fc44                   fedora       1.3 KiB
 zip                               aarch64 0:3.0-45.fc44                fedora     762.0 KiB
 zlib-ng-compat                    aarch64 0:2.3.2-3.fc44               fedora     133.4 KiB
 zstd                              aarch64 0:1.5.7-5.fc44               fedora     562.2 KiB
Installing groups:
 Buildsystem building group                                                                 

Transaction Summary:
 Installing:       182 packages

Total size of inbound packages is 66 MiB. Need to download 66 MiB.
After this operation, 248 MiB extra will be used (install 248 MiB, remove 0 B).
[  1/182] bzip2-0:1.0.8-23.fc44.aarch64 100% |   3.4 MiB/s |  51.9 KiB |  00m00s
[  2/182] cpio-0:2.15-6.fc43.aarch64    100% |  56.6 MiB/s | 289.6 KiB |  00m00s
[  3/182] coreutils-0:9.9-4.fc44.aarch6 100% |  48.1 MiB/s |   1.1 MiB |  00m00s
[  4/182] diffutils-0:3.12-5.fc44.aarch 100% |  95.7 MiB/s | 391.9 KiB |  00m00s
[  5/182] fedora-release-common-0:44-0. 100% |   8.0 MiB/s |  24.7 KiB |  00m00s
[  6/182] findutils-1:4.10.0-7.fc44.aar 100% | 134.8 MiB/s | 552.0 KiB |  00m00s
[  7/182] gawk-0:5.3.2-3.fc44.aarch64   100% | 159.6 MiB/s |   1.1 MiB |  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.aarch64    100% |  96.4 MiB/s | 296.3 KiB |  00m00s
[ 10/182] gzip-0:1.14-2.fc44.aarch64    100% |  56.2 MiB/s | 172.8 KiB |  00m00s
[ 11/182] patch-0:2.8-4.fc44.aarch64    100% |  36.2 MiB/s | 111.1 KiB |  00m00s
[ 12/182] info-0:7.2-7.fc44.aarch64     100% |  43.8 MiB/s | 179.5 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.aarc 100% |  25.8 MiB/s | 132.0 KiB |  00m00s
[ 15/182] shadow-utils-2:4.18.0-7.fc44. 100% | 182.9 MiB/s |   1.3 MiB |  00m00s
[ 16/182] sed-0:4.9-7.fc44.aarch64      100% |  19.2 MiB/s | 314.8 KiB |  00m00s
[ 17/182] tar-2:1.35-8.fc44.aarch64     100% | 104.4 MiB/s | 854.9 KiB |  00m00s
[ 18/182] unzip-0:6.0-69.fc44.aarch64   100% |  49.0 MiB/s | 200.9 KiB |  00m00s
[ 19/182] which-0:2.23-4.fc44.aarch64   100% |   8.1 MiB/s |  41.6 KiB |  00m00s
[ 20/182] util-linux-0:2.41.3-12.fc44.a 100% | 131.2 MiB/s |   1.2 MiB |  00m00s
[ 21/182] xz-1:5.8.2-2.fc44.aarch64     100% | 118.5 MiB/s | 606.6 KiB |  00m00s
[ 22/182] filesystem-0:3.18-52.fc44.aar 100% | 121.3 MiB/s |   1.3 MiB |  00m00s
[ 23/182] glibc-0:2.42.9000-25.fc44.aar 100% | 161.7 MiB/s |   1.9 MiB |  00m00s
[ 24/182] ncurses-libs-0:6.5-9.20250614 100% |  63.2 MiB/s | 323.8 KiB |  00m00s
[ 25/182] bzip2-libs-0:1.0.8-23.fc44.aa 100% |  20.1 MiB/s |  41.2 KiB |  00m00s
[ 26/182] bash-0:5.3.9-3.fc44.aarch64   100% |  19.2 MiB/s |   1.8 MiB |  00m00s
[ 27/182] gmp-1:6.3.0-5.fc44.aarch64    100% |  52.9 MiB/s | 271.0 KiB |  00m00s
[ 28/182] libacl-0:2.3.2-6.fc44.aarch64 100% |   7.8 MiB/s |  24.0 KiB |  00m00s
[ 29/182] coreutils-common-0:9.9-4.fc44 100% | 150.3 MiB/s |   2.1 MiB |  00m00s
[ 30/182] libattr-0:2.5.2-8.fc44.aarch6 100% |   2.5 MiB/s |  17.8 KiB |  00m00s
[ 31/182] libcap-0:2.77-2.fc44.aarch64  100% |  14.3 MiB/s |  87.8 KiB |  00m00s
[ 32/182] libselinux-0:3.9-7.fc44.aarch 100% |  47.6 MiB/s |  97.4 KiB |  00m00s
[ 33/182] fedora-repos-0:44-0.1.noarch  100% |   3.0 MiB/s |   9.1 KiB |  00m00s
[ 34/182] mpfr-0:4.2.2-3.fc44.aarch64   100% |  78.1 MiB/s | 320.0 KiB |  00m00s
[ 35/182] openssl-libs-1:3.5.4-2.fc44.a 100% | 164.1 MiB/s |   2.5 MiB |  00m00s
[ 36/182] readline-0:8.3-4.fc44.aarch64 100% |  43.2 MiB/s | 221.1 KiB |  00m00s
[ 37/182] glibc-common-0:2.42.9000-25.f 100% | 114.3 MiB/s | 351.3 KiB |  00m00s
[ 38/182] pcre2-0:10.47-1.fc44.1.aarch6 100% |  81.5 MiB/s | 250.2 KiB |  00m00s
[ 39/182] ed-0:1.22.4-2.fc44.aarch64    100% |  40.8 MiB/s |  83.6 KiB |  00m00s
[ 40/182] R-srpm-macros-0:1.3.4-3.fc44. 100% |   3.5 MiB/s |  10.8 KiB |  00m00s
[ 41/182] ansible-srpm-macros-0:1-20.1. 100% |   9.8 MiB/s |  20.1 KiB |  00m00s
[ 42/182] build-reproducibility-srpm-ma 100% |   4.2 MiB/s |  13.0 KiB |  00m00s
[ 43/182] cmake-srpm-macros-0:3.31.10-5 100% |   5.2 MiB/s |  10.6 KiB |  00m00s
[ 44/182] dwz-0:0.16-3.fc44.aarch64     100% |  42.8 MiB/s | 131.3 KiB |  00m00s
[ 45/182] efi-srpm-macros-0:6-6.fc44.no 100% |   7.3 MiB/s |  22.6 KiB |  00m00s
[ 46/182] file-0:5.46-9.fc44.aarch64    100% |  47.9 MiB/s |  49.1 KiB |  00m00s
[ 47/182] systemd-libs-0:259-9.fc44.aar 100% |  22.0 MiB/s | 789.4 KiB |  00m00s
[ 48/182] filesystem-srpm-macros-0:3.18 100% |   6.5 MiB/s |  26.6 KiB |  00m00s
[ 49/182] fonts-srpm-macros-1:5.0.0-2.f 100% |   8.9 MiB/s |  27.4 KiB |  00m00s
[ 50/182] forge-srpm-macros-0:0.4.0-4.f 100% |   9.8 MiB/s |  20.0 KiB |  00m00s
[ 51/182] fpc-srpm-macros-0:1.3-16.fc44 100% |   3.9 MiB/s |   7.9 KiB |  00m00s
[ 52/182] gap-srpm-macros-0:2-2.fc44.no 100% |   4.5 MiB/s |   9.1 KiB |  00m00s
[ 53/182] ghc-srpm-macros-0:1.9.2-4.fc4 100% |   4.3 MiB/s |   8.9 KiB |  00m00s
[ 54/182] gnat-srpm-macros-0:7-2.fc44.n 100% |   4.3 MiB/s |   8.7 KiB |  00m00s
[ 55/182] java-srpm-macros-0:1-8.fc44.n 100% |   2.0 MiB/s |   8.1 KiB |  00m00s
[ 56/182] go-srpm-macros-0:3.8.0-2.fc44 100% |   4.6 MiB/s |  28.2 KiB |  00m00s
[ 57/182] kernel-srpm-macros-0:1.0-28.f 100% |   2.2 MiB/s |   9.0 KiB |  00m00s
[ 58/182] lua-srpm-macros-0:1-17.fc44.n 100% |   4.3 MiB/s |   8.9 KiB |  00m00s
[ 59/182] ocaml-srpm-macros-0:11-3.fc44 100% |   4.5 MiB/s |   9.3 KiB |  00m00s
[ 60/182] openblas-srpm-macros-0:2-21.f 100% |   3.8 MiB/s |   7.8 KiB |  00m00s
[ 61/182] package-notes-srpm-macros-0:0 100% |   9.0 MiB/s |   9.2 KiB |  00m00s
[ 62/182] pyproject-srpm-macros-0:1.18. 100% |  13.2 MiB/s |  13.5 KiB |  00m00s
[ 63/182] perl-srpm-macros-0:1-61.fc44. 100% |   4.1 MiB/s |   8.4 KiB |  00m00s
[ 64/182] qt6-srpm-macros-0:6.10.1-2.fc 100% |   4.5 MiB/s |   9.2 KiB |  00m00s
[ 65/182] python-srpm-macros-0:3.14-10. 100% |   5.8 MiB/s |  24.0 KiB |  00m00s
[ 66/182] qt5-srpm-macros-0:5.15.18-2.f 100% |   2.1 MiB/s |   8.7 KiB |  00m00s
[ 67/182] rust-srpm-macros-0:28.4-3.fc4 100% |   5.4 MiB/s |  11.1 KiB |  00m00s
[ 68/182] rpm-0:6.0.1-2.fc44.aarch64    100% | 141.1 MiB/s | 577.8 KiB |  00m00s
[ 69/182] tree-sitter-srpm-macros-0:0.4 100% |   4.4 MiB/s |  13.5 KiB |  00m00s
[ 70/182] zig-srpm-macros-0:1-8.fc44.no 100% |   4.3 MiB/s |   8.8 KiB |  00m00s
[ 71/182] zip-0:3.0-45.fc44.aarch64     100% |  64.8 MiB/s | 265.6 KiB |  00m00s
[ 72/182] debugedit-0:5.2-6.fc44.aarch6 100% |  20.7 MiB/s |  84.7 KiB |  00m00s
[ 73/182] elfutils-0:0.194-3.fc44.aarch 100% | 131.5 MiB/s | 538.6 KiB |  00m00s
[ 74/182] elfutils-libelf-0:0.194-3.fc4 100% |  49.4 MiB/s | 202.3 KiB |  00m00s
[ 75/182] libarchive-0:3.8.4-2.fc44.aar 100% |  81.0 MiB/s | 414.7 KiB |  00m00s
[ 76/182] libgcc-0:16.0.1-0.3.fc44.1.aa 100% |  18.9 MiB/s |  96.5 KiB |  00m00s
[ 77/182] libstdc++-0:16.0.1-0.3.fc44.1 100% | 136.8 MiB/s | 840.3 KiB |  00m00s
[ 78/182] pkgconf-pkg-config-0:2.3.0-4. 100% |   1.9 MiB/s |   9.7 KiB |  00m00s
[ 79/182] binutils-0:2.45.50-19.fc44.aa 100% | 225.5 MiB/s |   6.3 MiB |  00m00s
[ 80/182] popt-0:1.19-10.fc44.aarch64   100% |   9.1 MiB/s |  65.2 KiB |  00m00s
[ 81/182] rpm-build-libs-0:6.0.1-2.fc44 100% |  16.4 MiB/s | 117.3 KiB |  00m00s
[ 82/182] rpm-libs-0:6.0.1-2.fc44.aarch 100% | 123.1 MiB/s | 378.2 KiB |  00m00s
[ 83/182] zstd-0:1.5.7-5.fc44.aarch64   100% |  59.6 MiB/s | 183.1 KiB |  00m00s
[ 84/182] audit-libs-0:4.1.2-4.fc44.aar 100% |  46.0 MiB/s | 141.2 KiB |  00m00s
[ 85/182] libeconf-0:0.7.9-3.fc44.aarch 100% |  17.1 MiB/s |  35.0 KiB |  00m00s
[ 86/182] libsemanage-0:3.9-5.fc44.aarc 100% |  28.9 MiB/s | 118.5 KiB |  00m00s
[ 87/182] libxcrypt-0:4.5.2-3.fc44.aarc 100% |  30.6 MiB/s | 125.1 KiB |  00m00s
[ 88/182] pam-libs-0:1.7.2-1.fc44.aarch 100% |  18.5 MiB/s |  56.8 KiB |  00m00s
[ 89/182] setup-0:2.15.0-28.fc44.noarch 100% |  51.2 MiB/s | 157.2 KiB |  00m00s
[ 90/182] libblkid-0:2.41.3-12.fc44.aar 100% |  39.6 MiB/s | 121.8 KiB |  00m00s
[ 91/182] libcap-ng-0:0.9-5.fc44.aarch6 100% |   8.0 MiB/s |  32.7 KiB |  00m00s
[ 92/182] libfdisk-0:2.41.3-12.fc44.aar 100% |  50.2 MiB/s | 154.4 KiB |  00m00s
[ 93/182] liblastlog2-0:2.41.3-12.fc44. 100% |  11.4 MiB/s |  23.3 KiB |  00m00s
[ 94/182] libuuid-0:2.41.3-12.fc44.aarc 100% |  25.3 MiB/s |  25.9 KiB |  00m00s
[ 95/182] libmount-0:2.41.3-12.fc44.aar 100% |  38.5 MiB/s | 157.8 KiB |  00m00s
[ 96/182] libsmartcols-0:2.41.3-12.fc44 100% |  20.2 MiB/s |  82.7 KiB |  00m00s
[ 97/182] util-linux-core-0:2.41.3-12.f 100% | 175.8 MiB/s | 540.2 KiB |  00m00s
[ 98/182] zlib-ng-compat-0:2.3.2-3.fc44 100% |  24.0 MiB/s |  73.7 KiB |  00m00s
[ 99/182] xz-libs-1:5.8.2-2.fc44.aarch6 100% |  36.3 MiB/s | 111.7 KiB |  00m00s
[100/182] ncurses-base-0:6.5-9.20250614 100% |  43.1 MiB/s |  88.2 KiB |  00m00s
[101/182] gnulib-l10n-0:20241231-2.fc44 100% |  29.4 MiB/s | 150.3 KiB |  00m00s
[102/182] libsepol-0:3.9-3.fc44.aarch64 100% |  63.4 MiB/s | 324.6 KiB |  00m00s
[103/182] glibc-gconv-extra-0:2.42.9000 100% | 170.1 MiB/s |   1.7 MiB |  00m00s
[104/182] ca-certificates-0:2025.2.80_v 100% | 118.8 MiB/s | 973.5 KiB |  00m00s
[105/182] crypto-policies-0:20251128-3. 100% |  12.0 MiB/s |  98.3 KiB |  00m00s
[106/182] fedora-gpg-keys-0:44-0.1.noar 100% |  22.6 MiB/s | 138.8 KiB |  00m00s
[107/182] fedora-repos-rawhide-0:44-0.1 100% |   4.2 MiB/s |   8.6 KiB |  00m00s
[108/182] pcre2-syntax-0:10.47-1.fc44.1 100% |  80.4 MiB/s | 164.7 KiB |  00m00s
[109/182] linkdupes-0:0.7.2-3.fc44.aarc 100% | 109.8 MiB/s | 337.2 KiB |  00m00s
[110/182] add-determinism-0:0.7.2-3.fc4 100% | 134.0 MiB/s | 823.2 KiB |  00m00s
[111/182] curl-0:8.18.0-3.fc44.aarch64  100% |  57.5 MiB/s | 235.6 KiB |  00m00s
[112/182] file-libs-0:5.46-9.fc44.aarch 100% | 103.5 MiB/s | 847.9 KiB |  00m00s
[113/182] alternatives-0:1.33-5.fc44.aa 100% |   9.9 MiB/s |  40.4 KiB |  00m00s
[114/182] elfutils-debuginfod-client-0: 100% |  22.4 MiB/s |  45.8 KiB |  00m00s
[115/182] jansson-0:2.14-4.fc44.aarch64 100% |  22.7 MiB/s |  46.5 KiB |  00m00s
[116/182] libzstd-0:1.5.7-5.fc44.aarch6 100% | 107.2 MiB/s | 329.2 KiB |  00m00s
[117/182] elfutils-libs-0:0.194-3.fc44. 100% |  42.8 MiB/s | 263.0 KiB |  00m00s
[118/182] lz4-libs-0:1.10.0-4.fc44.aarc 100% |  37.4 MiB/s |  76.6 KiB |  00m00s
[119/182] libxml2-0:2.12.10-6.fc44.aarc 100% | 111.0 MiB/s | 682.0 KiB |  00m00s
[120/182] pkgconf-0:2.3.0-4.fc44.aarch6 100% |  10.9 MiB/s |  44.5 KiB |  00m00s
[121/182] pkgconf-m4-0:2.3.0-4.fc44.noa 100% |   2.7 MiB/s |  14.1 KiB |  00m00s
[122/182] libgomp-0:16.0.1-0.3.fc44.1.a 100% |  87.2 MiB/s | 357.0 KiB |  00m00s
[123/182] lua-libs-0:5.4.8-5.fc44.aarch 100% |  31.6 MiB/s | 129.4 KiB |  00m00s
[124/182] rpm-sign-libs-0:6.0.1-2.fc44. 100% |   8.8 MiB/s |  27.1 KiB |  00m00s
[125/182] libffi-0:3.5.2-2.fc44.aarch64 100% |  19.3 MiB/s |  39.6 KiB |  00m00s
[126/182] rpm-sequoia-0:1.10.0-2.fc44.a 100% | 123.6 MiB/s | 885.7 KiB |  00m00s
[127/182] sqlite-libs-0:3.51.2-1.fc44.a 100% | 104.8 MiB/s | 750.9 KiB |  00m00s
[128/182] p11-kit-0:0.25.8-2.fc44.aarch 100% |  79.9 MiB/s | 490.6 KiB |  00m00s
[129/182] p11-kit-trust-0:0.25.8-2.fc44 100% |  45.0 MiB/s | 138.1 KiB |  00m00s
[130/182] json-c-0:0.18-8.fc44.aarch64  100% |  21.9 MiB/s |  44.9 KiB |  00m00s
[131/182] elfutils-default-yama-scope-0 100% |  11.6 MiB/s |  11.9 KiB |  00m00s
[132/182] libpkgconf-0:2.3.0-4.fc44.aar 100% |  18.5 MiB/s |  37.9 KiB |  00m00s
[133/182] ima-evm-utils-libs-0:1.6.2-8. 100% |   7.2 MiB/s |  29.5 KiB |  00m00s
[134/182] libfsverity-0:1.6-4.fc44.aarc 100% |   4.6 MiB/s |  18.7 KiB |  00m00s
[135/182] gnupg2-0:2.4.9-4.fc44.aarch64 100% | 201.5 MiB/s |   1.6 MiB |  00m00s
[136/182] gpgverify-0:2.2-4.fc44.noarch 100% |   5.5 MiB/s |  11.2 KiB |  00m00s
[137/182] libtasn1-0:4.20.0-3.fc44.aarc 100% |  23.9 MiB/s |  73.4 KiB |  00m00s
[138/182] gnupg2-gpg-agent-0:2.4.9-4.fc 100% | 129.8 MiB/s | 265.8 KiB |  00m00s
[139/182] gnupg2-dirmngr-0:2.4.9-4.fc44 100% |  64.5 MiB/s | 264.2 KiB |  00m00s
[140/182] gnupg2-gpgconf-0:2.4.9-4.fc44 100% |  27.8 MiB/s | 113.9 KiB |  00m00s
[141/182] gnupg2-keyboxd-0:2.4.9-4.fc44 100% |  29.7 MiB/s |  91.3 KiB |  00m00s
[142/182] gnupg2-verify-0:2.4.9-4.fc44. 100% |  53.2 MiB/s | 163.5 KiB |  00m00s
[143/182] libassuan-0:2.5.7-5.fc44.aarc 100% |  21.8 MiB/s |  66.9 KiB |  00m00s
[144/182] libgcrypt-0:1.11.2-1.fc44.aar 100% | 126.8 MiB/s | 519.6 KiB |  00m00s
[145/182] npth-0:1.8-4.fc44.aarch64     100% |   8.2 MiB/s |  25.0 KiB |  00m00s
[146/182] libgpg-error-0:1.58-2.fc44.aa 100% |  60.6 MiB/s | 248.3 KiB |  00m00s
[147/182] libksba-0:1.6.7-5.fc44.aarch6 100% |  51.4 MiB/s | 157.8 KiB |  00m00s
[148/182] tpm2-tss-0:4.1.3-9.fc44.aarch 100% |  65.3 MiB/s | 401.2 KiB |  00m00s
[149/182] openldap-0:2.6.10-7.fc44.aarc 100% |  61.4 MiB/s | 251.4 KiB |  00m00s
[150/182] gnutls-0:3.8.11-10.fc44.aarch 100% | 116.3 MiB/s |   1.3 MiB |  00m00s
[151/182] libusb1-0:1.0.29-5.fc44.aarch 100% |  15.2 MiB/s |  78.0 KiB |  00m00s
[152/182] libidn2-0:2.3.8-3.fc44.aarch6 100% |  56.8 MiB/s | 174.6 KiB |  00m00s
[153/182] libunistring-0:1.1-11.fc44.aa 100% | 131.4 MiB/s | 538.3 KiB |  00m00s
[154/182] nettle-0:3.10.1-3.fc44.aarch6 100% |  83.1 MiB/s | 425.5 KiB |  00m00s
[155/182] cyrus-sasl-lib-0:2.1.28-35.fc 100% | 125.8 MiB/s | 772.9 KiB |  00m00s
[156/182] libevent-0:2.1.12-17.fc44.aar 100% |  66.0 MiB/s | 270.5 KiB |  00m00s
[157/182] libtool-ltdl-0:2.5.4-10.fc44. 100% |  11.6 MiB/s |  35.6 KiB |  00m00s
[158/182] gdbm-libs-1:1.23-11.fc44.aarc 100% |  27.5 MiB/s |  56.3 KiB |  00m00s
[159/182] fedora-release-0:44-0.10.noar 100% |   6.6 MiB/s |  13.5 KiB |  00m00s
[160/182] systemd-standalone-sysusers-0 100% |  45.1 MiB/s | 138.4 KiB |  00m00s
[161/182] xxhash-libs-0:0.8.3-4.fc44.aa 100% |  16.8 MiB/s |  34.5 KiB |  00m00s
[162/182] fedora-release-identity-basic 100% |   7.0 MiB/s |  14.3 KiB |  00m00s
[163/182] libcurl-0:8.18.0-3.fc44.aarch 100% |  82.8 MiB/s | 423.8 KiB |  00m00s
[164/182] krb5-libs-0:1.21.3-12.fc44.aa 100% |  91.8 MiB/s | 752.1 KiB |  00m00s
[165/182] libbrotli-0:1.2.0-3.fc44.aarc 100% |  48.6 MiB/s | 348.7 KiB |  00m00s
[166/182] libnghttp2-0:1.68.0-3.fc44.aa 100% |  14.6 MiB/s |  74.7 KiB |  00m00s
[167/182] libnghttp3-0:1.15.0-1.fc44.aa 100% |  13.4 MiB/s |  68.8 KiB |  00m00s
[168/182] gdb-minimal-0:17.1-2.fc44.aar 100% | 156.5 MiB/s |   4.4 MiB |  00m00s
[169/182] libpsl-0:0.21.5-7.fc44.aarch6 100% |   7.0 MiB/s |  64.9 KiB |  00m00s
[170/182] libssh-0:0.11.3-1.fc44.aarch6 100% |  32.2 MiB/s | 230.6 KiB |  00m00s
[171/182] ngtcp2-0:1.19.0-2.fc44.aarch6 100% |  70.8 MiB/s | 144.9 KiB |  00m00s
[172/182] ngtcp2-crypto-ossl-0:1.19.0-2 100% |  12.5 MiB/s |  25.6 KiB |  00m00s
[173/182] keyutils-libs-0:1.6.3-7.fc44. 100% |  15.4 MiB/s |  31.5 KiB |  00m00s
[174/182] libcom_err-0:1.47.3-4.fc44.aa 100% |  26.3 MiB/s |  27.0 KiB |  00m00s
[175/182] libverto-0:0.3.2-12.fc44.aarc 100% |  10.0 MiB/s |  20.5 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% |   8.9 MiB/s |   9.1 KiB |  00m00s
[178/182] policycoreutils-0:3.9-8.fc44. 100% |  84.4 MiB/s | 259.2 KiB |  00m00s
[179/182] selinux-policy-0:42.22-1.fc44 100% |  16.6 MiB/s |  67.8 KiB |  00m00s
[180/182] libselinux-utils-0:3.9-7.fc44 100% |  39.9 MiB/s | 122.4 KiB |  00m00s
[181/182] rpm-plugin-selinux-0:6.0.1-2. 100% |   6.3 MiB/s |  19.2 KiB |  00m00s
[182/182] selinux-policy-targeted-0:42. 100% | 272.4 MiB/s |   6.8 MiB |  00m00s
--------------------------------------------------------------------------------
[182/182] Total                         100% | 174.0 MiB/s |  65.9 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% | 758.0   B/s | 182.0   B |  00m00s
[  2/184] Prepare transaction           100% |   2.3 KiB/s | 182.0   B |  00m00s
[  3/184] Installing libgcc-0:16.0.1-0. 100% | 218.7 MiB/s | 223.9 KiB |  00m00s
[  4/184] Installing libssh-config-0:0. 100% |   0.0   B/s | 816.0   B |  00m00s
[  5/184] Installing publicsuffix-list- 100% |  69.4 MiB/s |  71.1 KiB |  00m00s
[  6/184] Installing fedora-release-ide 100% | 898.4 KiB/s | 920.0   B |  00m00s
[  7/184] Installing fedora-gpg-keys-0: 100% |  29.1 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% |  17.3 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% |  37.5 MiB/s | 730.6 KiB |  00m00s
>>> [RPM] /etc/hosts created as /etc/hosts.rpmnew
[ 13/184] Installing filesystem-0:3.18- 100% |   2.0 MiB/s | 212.8 KiB |  00m00s
[ 14/184] Installing pkgconf-m4-0:2.3.0 100% |  14.5 MiB/s |  14.8 KiB |  00m00s
[ 15/184] Installing pcre2-syntax-0:10. 100% | 138.8 MiB/s | 284.3 KiB |  00m00s
[ 16/184] Installing gnulib-l10n-0:2024 100% | 129.3 MiB/s | 661.9 KiB |  00m00s
[ 17/184] Installing coreutils-common-0 100% | 320.8 MiB/s |  11.2 MiB |  00m00s
[ 18/184] Installing ncurses-base-0:6.5 100% |  49.3 MiB/s | 353.5 KiB |  00m00s
[ 19/184] Installing bash-0:5.3.9-3.fc4 100% | 210.8 MiB/s |   8.4 MiB |  00m00s
[ 20/184] Installing glibc-common-0:2.4 100% |  60.2 MiB/s |   1.3 MiB |  00m00s
[ 21/184] Installing glibc-gconv-extra- 100% | 396.3 MiB/s |  18.6 MiB |  00m00s
[ 22/184] Installing glibc-0:2.42.9000- 100% | 148.4 MiB/s |   6.4 MiB |  00m00s
[ 23/184] Installing ncurses-libs-0:6.5 100% | 249.2 MiB/s |   1.2 MiB |  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% | 131.0 MiB/s | 134.2 KiB |  00m00s
[ 26/184] Installing bzip2-libs-0:1.0.8 100% |  71.9 MiB/s |  73.6 KiB |  00m00s
[ 27/184] Installing libgpg-error-0:1.5 100% |  48.6 MiB/s | 995.5 KiB |  00m00s
[ 28/184] Installing libstdc++-0:16.0.1 100% | 315.9 MiB/s |   2.8 MiB |  00m00s
[ 29/184] Installing libassuan-0:2.5.7- 100% | 212.6 MiB/s | 217.7 KiB |  00m00s
[ 30/184] Installing libgcrypt-0:1.11.2 100% | 239.1 MiB/s |   1.2 MiB |  00m00s
[ 31/184] Installing readline-0:8.3-4.f 100% | 276.2 MiB/s | 565.6 KiB |  00m00s
[ 32/184] Installing gmp-1:6.3.0-5.fc44 100% | 214.9 MiB/s | 660.1 KiB |  00m00s
[ 33/184] Installing libuuid-0:2.41.3-1 100% |  68.6 MiB/s |  70.3 KiB |  00m00s
[ 34/184] Installing xz-libs-1:5.8.2-2. 100% | 260.2 MiB/s | 266.5 KiB |  00m00s
[ 35/184] Installing popt-0:1.19-10.fc4 100% |  49.2 MiB/s | 151.3 KiB |  00m00s
[ 36/184] Installing libzstd-0:1.5.7-5. 100% | 280.4 MiB/s | 861.5 KiB |  00m00s
[ 37/184] Installing elfutils-libelf-0: 100% | 381.4 MiB/s |   1.1 MiB |  00m00s
[ 38/184] Installing npth-0:1.8-4.fc44. 100% |  92.2 MiB/s |  94.4 KiB |  00m00s
[ 39/184] Installing libblkid-0:2.41.3- 100% | 142.3 MiB/s | 291.4 KiB |  00m00s
[ 40/184] Installing systemd-libs-0:259 100% | 307.6 MiB/s |   2.5 MiB |  00m00s
[ 41/184] Installing libxcrypt-0:4.5.2- 100% | 134.7 MiB/s | 275.9 KiB |  00m00s
[ 42/184] Installing libsepol-0:3.9-3.f 100% | 263.9 MiB/s | 810.6 KiB |  00m00s
[ 43/184] Installing sqlite-libs-0:3.51 100% | 261.2 MiB/s |   1.6 MiB |  00m00s
[ 44/184] Installing gnupg2-gpgconf-0:2 100% |  18.6 MiB/s | 323.8 KiB |  00m00s
[ 45/184] Installing libattr-0:2.5.2-8. 100% |  67.6 MiB/s |  69.3 KiB |  00m00s
[ 46/184] Installing libacl-0:2.3.2-6.f 100% |  67.0 MiB/s |  68.6 KiB |  00m00s
[ 47/184] Installing pcre2-0:10.47-1.fc 100% | 233.0 MiB/s | 715.7 KiB |  00m00s
[ 48/184] Installing libselinux-0:3.9-7 100% |  98.7 MiB/s | 202.2 KiB |  00m00s
[ 49/184] Installing grep-0:3.12-3.fc44 100% |  47.2 MiB/s |   1.0 MiB |  00m00s
[ 50/184] Installing sed-0:4.9-7.fc44.a 100% |  41.0 MiB/s | 881.3 KiB |  00m00s
[ 51/184] Installing findutils-1:4.10.0 100% |  80.0 MiB/s |   1.9 MiB |  00m00s
[ 52/184] Installing libtasn1-0:4.20.0- 100% | 108.4 MiB/s | 222.0 KiB |  00m00s
[ 53/184] Installing libunistring-0:1.1 100% | 291.0 MiB/s |   1.7 MiB |  00m00s
[ 54/184] Installing libidn2-0:2.3.8-3. 100% |  55.3 MiB/s | 566.6 KiB |  00m00s
[ 55/184] Installing crypto-policies-0: 100% |  22.0 MiB/s | 157.7 KiB |  00m00s
[ 56/184] Installing xz-1:5.8.2-2.fc44. 100% |  57.9 MiB/s |   1.4 MiB |  00m00s
[ 57/184] Installing libmount-0:2.41.3- 100% | 205.7 MiB/s | 421.2 KiB |  00m00s
[ 58/184] Installing gnupg2-verify-0:2. 100% |  21.0 MiB/s | 365.7 KiB |  00m00s
[ 59/184] Installing dwz-0:0.16-3.fc44. 100% |  18.6 MiB/s | 323.8 KiB |  00m00s
[ 60/184] Installing mpfr-0:4.2.2-3.fc4 100% | 184.8 MiB/s | 757.1 KiB |  00m00s
[ 61/184] Installing gawk-0:5.3.2-3.fc4 100% | 103.2 MiB/s |   2.6 MiB |  00m00s
[ 62/184] Installing libksba-0:1.6.7-5. 100% | 195.7 MiB/s | 400.8 KiB |  00m00s
[ 63/184] Installing unzip-0:6.0-69.fc4 100% |  29.2 MiB/s | 537.3 KiB |  00m00s
[ 64/184] Installing file-libs-0:5.46-9 100% | 625.3 MiB/s |  11.9 MiB |  00m00s
[ 65/184] Installing file-0:5.46-9.fc44 100% |   8.1 MiB/s | 141.6 KiB |  00m00s
[ 66/184] Installing diffutils-0:3.12-5 100% |  73.8 MiB/s |   1.6 MiB |  00m00s
[ 67/184] Installing libeconf-0:0.7.9-3 100% |  80.5 MiB/s |  82.5 KiB |  00m00s
[ 68/184] Installing libcap-ng-0:0.9-5. 100% | 158.7 MiB/s | 162.5 KiB |  00m00s
[ 69/184] Installing audit-libs-0:4.1.2 100% | 238.8 MiB/s | 489.1 KiB |  00m00s
[ 70/184] Installing pam-libs-0:1.7.2-1 100% | 219.7 MiB/s | 225.0 KiB |  00m00s
[ 71/184] Installing libcap-0:2.77-2.fc 100% |  27.8 MiB/s | 513.1 KiB |  00m00s
[ 72/184] Installing libsemanage-0:3.9- 100% | 176.6 MiB/s | 361.7 KiB |  00m00s
[ 73/184] Installing libsmartcols-0:2.4 100% | 220.2 MiB/s | 225.5 KiB |  00m00s
[ 74/184] Installing alternatives-0:1.3 100% |   5.6 MiB/s |  91.6 KiB |  00m00s
[ 75/184] Installing lua-libs-0:5.4.8-5 100% | 161.7 MiB/s | 331.3 KiB |  00m00s
[ 76/184] Installing libffi-0:3.5.2-2.f 100% | 153.4 MiB/s | 157.1 KiB |  00m00s
[ 77/184] Installing p11-kit-0:0.25.8-2 100% |  93.0 MiB/s |   2.5 MiB |  00m00s
[ 78/184] Installing p11-kit-trust-0:0. 100% |  21.6 MiB/s | 531.7 KiB |  00m00s
[ 79/184] Installing json-c-0:0.18-8.fc 100% | 136.5 MiB/s | 139.7 KiB |  00m00s
[ 80/184] Installing ngtcp2-0:1.19.0-2. 100% | 167.3 MiB/s | 342.5 KiB |  00m00s
[ 81/184] Installing openssl-libs-1:3.5 100% | 322.7 MiB/s |   7.4 MiB |  00m00s
[ 82/184] Installing coreutils-0:9.9-4. 100% | 185.3 MiB/s |   8.2 MiB |  00m00s
[ 83/184] Installing ca-certificates-0: 100% |   1.5 MiB/s |   2.5 MiB |  00m02s
[ 84/184] Installing gzip-0:1.14-2.fc44 100% |  22.8 MiB/s | 443.0 KiB |  00m00s
[ 85/184] Installing rpm-sequoia-0:1.10 100% | 288.3 MiB/s |   2.3 MiB |  00m00s
[ 86/184] Installing libfsverity-0:1.6- 100% |  67.7 MiB/s |  69.3 KiB |  00m00s
[ 87/184] Installing libevent-0:2.1.12- 100% | 271.2 MiB/s |   1.1 MiB |  00m00s
[ 88/184] Installing ngtcp2-crypto-ossl 100% |  66.7 MiB/s |  68.3 KiB |  00m00s
[ 89/184] Installing util-linux-core-0: 100% |  96.0 MiB/s |   2.4 MiB |  00m00s
[ 90/184] Installing zip-0:3.0-45.fc44. 100% |  39.4 MiB/s | 765.8 KiB |  00m00s
[ 91/184] Installing gnupg2-keyboxd-0:2 100% |  38.2 MiB/s | 234.5 KiB |  00m00s
[ 92/184] Installing libpsl-0:0.21.5-7. 100% | 130.3 MiB/s | 133.4 KiB |  00m00s
[ 93/184] Installing tar-2:1.35-8.fc44. 100% | 111.3 MiB/s |   3.0 MiB |  00m00s
[ 94/184] Installing linkdupes-0:0.7.2- 100% |  40.1 MiB/s | 780.6 KiB |  00m00s
[ 95/184] Installing libselinux-utils-0 100% |  67.8 MiB/s |   1.4 MiB |  00m00s
[ 96/184] Installing liblastlog2-0:2.41 100% |  22.7 MiB/s | 139.6 KiB |  00m00s
[ 97/184] Installing systemd-standalone 100% |  19.0 MiB/s | 330.1 KiB |  00m00s
[ 98/184] Installing rpm-libs-0:6.0.1-2 100% | 243.3 MiB/s | 996.5 KiB |  00m00s
[ 99/184] Installing libusb1-0:1.0.29-5 100% |  22.0 MiB/s | 180.5 KiB |  00m00s
>>> Running sysusers scriptlet: tpm2-tss-0:4.1.3-9.fc44.aarch64
>>> Finished sysusers scriptlet: tpm2-tss-0:4.1.3-9.fc44.aarch64
>>> 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% | 269.6 MiB/s |   2.2 MiB |  00m00s
[101/184] Installing ima-evm-utils-libs 100% |  91.7 MiB/s |  93.9 KiB |  00m00s
[102/184] Installing gnupg2-gpg-agent-0 100% |  31.9 MiB/s | 850.6 KiB |  00m00s
[103/184] Installing libfdisk-0:2.41.3- 100% | 136.6 MiB/s | 419.7 KiB |  00m00s
[104/184] Installing util-linux-0:2.41. 100% | 139.9 MiB/s |   6.9 MiB |  00m00s
[105/184] Installing policycoreutils-0: 100% |  43.7 MiB/s |   1.5 MiB |  00m00s
[106/184] Installing selinux-policy-0:4 100% |   1.5 MiB/s |  33.6 KiB |  00m00s
[107/184] Installing selinux-policy-tar 100% | 135.8 MiB/s |  14.8 MiB |  00m00s
[108/184] Installing zstd-0:1.5.7-5.fc4 100% |  26.3 MiB/s | 565.8 KiB |  00m00s
[109/184] Installing libxml2-0:2.12.10- 100% |  82.2 MiB/s |   1.9 MiB |  00m00s
[110/184] Installing nettle-0:3.10.1-3. 100% | 250.1 MiB/s | 768.2 KiB |  00m00s
[111/184] Installing gnutls-0:3.8.11-10 100% | 297.6 MiB/s |   3.6 MiB |  00m00s
[112/184] Installing bzip2-0:1.0.8-23.f 100% |  10.1 MiB/s | 175.6 KiB |  00m00s
[113/184] Installing add-determinism-0: 100% |  90.0 MiB/s |   2.0 MiB |  00m00s
[114/184] Installing build-reproducibil 100% |   1.5 MiB/s |   1.5 KiB |  00m00s
[115/184] Installing cpio-0:2.15-6.fc43 100% |  52.2 MiB/s |   1.1 MiB |  00m00s
[116/184] Installing ed-0:1.22.4-2.fc44 100% |   9.2 MiB/s | 159.4 KiB |  00m00s
[117/184] Installing patch-0:2.8-4.fc44 100% |  15.2 MiB/s | 263.9 KiB |  00m00s
[118/184] Installing jansson-0:2.14-4.f 100% |  92.2 MiB/s |  94.4 KiB |  00m00s
[119/184] Installing lz4-libs-0:1.10.0- 100% | 193.7 MiB/s | 198.4 KiB |  00m00s
[120/184] Installing libarchive-0:3.8.4 100% | 238.5 MiB/s | 977.0 KiB |  00m00s
[121/184] Installing libgomp-0:16.0.1-0 100% | 289.2 MiB/s | 592.3 KiB |  00m00s
[122/184] Installing libpkgconf-0:2.3.0 100% | 131.8 MiB/s | 135.0 KiB |  00m00s
[123/184] Installing pkgconf-0:2.3.0-4. 100% |   6.6 MiB/s | 114.8 KiB |  00m00s
[124/184] Installing pkgconf-pkg-config 100% | 110.8 KiB/s |   1.8 KiB |  00m00s
[125/184] Installing libtool-ltdl-0:2.5 100% |  92.8 MiB/s |  95.0 KiB |  00m00s
[126/184] Installing gdbm-libs-1:1.23-1 100% | 229.9 MiB/s | 235.4 KiB |  00m00s
[127/184] Installing cyrus-sasl-lib-0:2 100% | 100.7 MiB/s |   2.4 MiB |  00m00s
[128/184] Installing openldap-0:2.6.10- 100% | 186.9 MiB/s | 765.4 KiB |  00m00s
[129/184] Installing gnupg2-dirmngr-0:2 100% |  26.4 MiB/s | 648.8 KiB |  00m00s
[130/184] Installing gnupg2-0:2.4.9-4.f 100% | 174.5 MiB/s |   6.5 MiB |  00m00s
[131/184] Installing rpm-sign-libs-0:6. 100% |  66.8 MiB/s |  68.5 KiB |  00m00s
[132/184] Installing gpgverify-0:2.2-4. 100% |   9.2 MiB/s |   9.4 KiB |  00m00s
[133/184] Installing xxhash-libs-0:0.8. 100% |  85.1 MiB/s |  87.2 KiB |  00m00s
[134/184] Installing libbrotli-0:1.2.0- 100% | 222.5 MiB/s | 911.3 KiB |  00m00s
[135/184] Installing libnghttp2-0:1.68. 100% | 194.3 MiB/s | 199.0 KiB |  00m00s
[136/184] Installing libnghttp3-0:1.15. 100% | 203.1 MiB/s | 208.0 KiB |  00m00s
[137/184] Installing keyutils-libs-0:1. 100% |  97.3 MiB/s |  99.6 KiB |  00m00s
[138/184] Installing libcom_err-0:1.47. 100% | 109.5 MiB/s | 112.1 KiB |  00m00s
[139/184] Installing libverto-0:0.3.2-1 100% |  69.4 MiB/s |  71.1 KiB |  00m00s
[140/184] Installing krb5-libs-0:1.21.3 100% | 253.1 MiB/s |   2.5 MiB |  00m00s
[141/184] Installing libssh-0:0.11.3-1. 100% | 191.8 MiB/s | 589.1 KiB |  00m00s
[142/184] Installing libcurl-0:8.18.0-3 100% | 239.7 MiB/s | 982.0 KiB |  00m00s
[143/184] Installing curl-0:8.18.0-3.fc 100% |  16.9 MiB/s | 466.7 KiB |  00m00s
[144/184] Installing rpm-0:6.0.1-2.fc44 100% |  63.5 MiB/s |   2.8 MiB |  00m00s
[145/184] Installing cmake-srpm-macros- 100% | 785.2 KiB/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% |   9.1 MiB/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% |  38.0 MiB/s |  38.9 KiB |  00m00s
[152/184] Installing elfutils-default-y 100% | 408.6 KiB/s |   2.0 KiB |  00m00s
[153/184] Installing elfutils-libs-0:0. 100% | 182.7 MiB/s | 748.2 KiB |  00m00s
[154/184] Installing elfutils-debuginfo 100% |   7.5 MiB/s | 146.0 KiB |  00m00s
[155/184] Installing binutils-0:2.45.50 100% | 304.0 MiB/s |  30.7 MiB |  00m00s
[156/184] Installing elfutils-0:0.194-3 100% | 125.5 MiB/s |   3.3 MiB |  00m00s
[157/184] Installing gdb-minimal-0:17.1 100% | 248.5 MiB/s |  13.7 MiB |  00m00s
[158/184] Installing debugedit-0:5.2-6. 100% |  17.4 MiB/s | 321.6 KiB |  00m00s
[159/184] Installing rpm-build-libs-0:6 100% | 129.3 MiB/s | 264.8 KiB |  00m00s
[160/184] Installing rust-srpm-macros-0 100% |   6.2 MiB/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% |  35.4 MiB/s |  36.2 KiB |  00m00s
[173/184] Installing redhat-rpm-config- 100% |  92.7 MiB/s | 189.9 KiB |  00m00s
[174/184] Installing forge-srpm-macros- 100% |  39.3 MiB/s |  40.3 KiB |  00m00s
[175/184] Installing fonts-srpm-macros- 100% |  55.7 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% |  29.7 MiB/s | 607.4 KiB |  00m00s
[178/184] Installing pyproject-srpm-mac 100% |   2.4 MiB/s |   2.5 KiB |  00m00s
[179/184] Installing R-srpm-macros-0:1. 100% | 699.9 KiB/s |   4.2 KiB |  00m00s
[180/184] Installing python-srpm-macros 100% |  51.7 MiB/s |  52.9 KiB |  00m00s
[181/184] Installing rpm-plugin-selinux 100% |  67.3 MiB/s |  68.9 KiB |  00m00s
[182/184] Installing which-0:2.23-4.fc4 100% |   6.5 MiB/s | 125.5 KiB |  00m00s
[183/184] Installing shadow-utils-2:4.1 100% | 112.3 MiB/s |   4.5 MiB |  00m00s
[184/184] Installing info-0:7.2-7.fc44. 100% |  51.4 KiB/s | 422.0 KiB |  00m08s
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.aarch64
alternatives-1.33-5.fc44.aarch64
ansible-srpm-macros-1-20.1.fc44.noarch
audit-libs-4.1.2-4.fc44.aarch64
bash-5.3.9-3.fc44.aarch64
binutils-2.45.50-19.fc44.aarch64
build-reproducibility-srpm-macros-0.7.2-3.fc44.noarch
bzip2-1.0.8-23.fc44.aarch64
bzip2-libs-1.0.8-23.fc44.aarch64
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.aarch64
coreutils-common-9.9-4.fc44.aarch64
cpio-2.15-6.fc43.aarch64
crypto-policies-20251128-3.git19878fe.fc44.noarch
curl-8.18.0-3.fc44.aarch64
cyrus-sasl-lib-2.1.28-35.fc44.aarch64
debugedit-5.2-6.fc44.aarch64
diffutils-3.12-5.fc44.aarch64
dwz-0.16-3.fc44.aarch64
ed-1.22.4-2.fc44.aarch64
efi-srpm-macros-6-6.fc44.noarch
elfutils-0.194-3.fc44.aarch64
elfutils-debuginfod-client-0.194-3.fc44.aarch64
elfutils-default-yama-scope-0.194-3.fc44.noarch
elfutils-libelf-0.194-3.fc44.aarch64
elfutils-libs-0.194-3.fc44.aarch64
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.aarch64
file-libs-5.46-9.fc44.aarch64
filesystem-3.18-52.fc44.aarch64
filesystem-srpm-macros-3.18-52.fc44.noarch
findutils-4.10.0-7.fc44.aarch64
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.aarch64
gdb-minimal-17.1-2.fc44.aarch64
gdbm-libs-1.23-11.fc44.aarch64
ghc-srpm-macros-1.9.2-4.fc44.noarch
glibc-2.42.9000-25.fc44.aarch64
glibc-common-2.42.9000-25.fc44.aarch64
glibc-gconv-extra-2.42.9000-25.fc44.aarch64
glibc-minimal-langpack-2.42.9000-25.fc44.aarch64
gmp-6.3.0-5.fc44.aarch64
gnat-srpm-macros-7-2.fc44.noarch
gnulib-l10n-20241231-2.fc44.noarch
gnupg2-2.4.9-4.fc44.aarch64
gnupg2-dirmngr-2.4.9-4.fc44.aarch64
gnupg2-gpg-agent-2.4.9-4.fc44.aarch64
gnupg2-gpgconf-2.4.9-4.fc44.aarch64
gnupg2-keyboxd-2.4.9-4.fc44.aarch64
gnupg2-verify-2.4.9-4.fc44.aarch64
gnutls-3.8.11-10.fc44.aarch64
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.aarch64
gzip-1.14-2.fc44.aarch64
ima-evm-utils-libs-1.6.2-8.fc44.aarch64
info-7.2-7.fc44.aarch64
jansson-2.14-4.fc44.aarch64
java-srpm-macros-1-8.fc44.noarch
json-c-0.18-8.fc44.aarch64
kernel-srpm-macros-1.0-28.fc44.noarch
keyutils-libs-1.6.3-7.fc44.aarch64
krb5-libs-1.21.3-12.fc44.aarch64
libacl-2.3.2-6.fc44.aarch64
libarchive-3.8.4-2.fc44.aarch64
libassuan-2.5.7-5.fc44.aarch64
libattr-2.5.2-8.fc44.aarch64
libblkid-2.41.3-12.fc44.aarch64
libbrotli-1.2.0-3.fc44.aarch64
libcap-2.77-2.fc44.aarch64
libcap-ng-0.9-5.fc44.aarch64
libcom_err-1.47.3-4.fc44.aarch64
libcurl-8.18.0-3.fc44.aarch64
libeconf-0.7.9-3.fc44.aarch64
libevent-2.1.12-17.fc44.aarch64
libfdisk-2.41.3-12.fc44.aarch64
libffi-3.5.2-2.fc44.aarch64
libfsverity-1.6-4.fc44.aarch64
libgcc-16.0.1-0.3.fc44.1.aarch64
libgcrypt-1.11.2-1.fc44.aarch64
libgomp-16.0.1-0.3.fc44.1.aarch64
libgpg-error-1.58-2.fc44.aarch64
libidn2-2.3.8-3.fc44.aarch64
libksba-1.6.7-5.fc44.aarch64
liblastlog2-2.41.3-12.fc44.aarch64
libmount-2.41.3-12.fc44.aarch64
libnghttp2-1.68.0-3.fc44.aarch64
libnghttp3-1.15.0-1.fc44.aarch64
libpkgconf-2.3.0-4.fc44.aarch64
libpsl-0.21.5-7.fc44.aarch64
libselinux-3.9-7.fc44.aarch64
libselinux-utils-3.9-7.fc44.aarch64
libsemanage-3.9-5.fc44.aarch64
libsepol-3.9-3.fc44.aarch64
libsmartcols-2.41.3-12.fc44.aarch64
libssh-0.11.3-1.fc44.aarch64
libssh-config-0.11.3-1.fc44.noarch
libstdc++-16.0.1-0.3.fc44.1.aarch64
libtasn1-4.20.0-3.fc44.aarch64
libtool-ltdl-2.5.4-10.fc44.aarch64
libunistring-1.1-11.fc44.aarch64
libusb1-1.0.29-5.fc44.aarch64
libuuid-2.41.3-12.fc44.aarch64
libverto-0.3.2-12.fc44.aarch64
libxcrypt-4.5.2-3.fc44.aarch64
libxml2-2.12.10-6.fc44.aarch64
libzstd-1.5.7-5.fc44.aarch64
linkdupes-0.7.2-3.fc44.aarch64
lua-libs-5.4.8-5.fc44.aarch64
lua-srpm-macros-1-17.fc44.noarch
lz4-libs-1.10.0-4.fc44.aarch64
mpfr-4.2.2-3.fc44.aarch64
ncurses-base-6.5-9.20250614.fc44.noarch
ncurses-libs-6.5-9.20250614.fc44.aarch64
nettle-3.10.1-3.fc44.aarch64
ngtcp2-1.19.0-2.fc44.aarch64
ngtcp2-crypto-ossl-1.19.0-2.fc44.aarch64
npth-1.8-4.fc44.aarch64
ocaml-srpm-macros-11-3.fc44.noarch
openblas-srpm-macros-2-21.fc44.noarch
openldap-2.6.10-7.fc44.aarch64
openssl-libs-3.5.4-2.fc44.aarch64
p11-kit-0.25.8-2.fc44.aarch64
p11-kit-trust-0.25.8-2.fc44.aarch64
package-notes-srpm-macros-0.5-15.fc44.noarch
pam-libs-1.7.2-1.fc44.aarch64
patch-2.8-4.fc44.aarch64
pcre2-10.47-1.fc44.1.aarch64
pcre2-syntax-10.47-1.fc44.1.noarch
perl-srpm-macros-1-61.fc44.noarch
pkgconf-2.3.0-4.fc44.aarch64
pkgconf-m4-2.3.0-4.fc44.noarch
pkgconf-pkg-config-2.3.0-4.fc44.aarch64
policycoreutils-3.9-8.fc44.aarch64
popt-1.19-10.fc44.aarch64
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.aarch64
redhat-rpm-config-343-19.fc44.noarch
rpm-6.0.1-2.fc44.aarch64
rpm-build-6.0.1-2.fc44.aarch64
rpm-build-libs-6.0.1-2.fc44.aarch64
rpm-libs-6.0.1-2.fc44.aarch64
rpm-plugin-selinux-6.0.1-2.fc44.aarch64
rpm-sequoia-1.10.0-2.fc44.aarch64
rpm-sign-libs-6.0.1-2.fc44.aarch64
rust-srpm-macros-28.4-3.fc44.noarch
sed-4.9-7.fc44.aarch64
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.aarch64
sqlite-libs-3.51.2-1.fc44.aarch64
systemd-libs-259-9.fc44.aarch64
systemd-standalone-sysusers-259-9.fc44.aarch64
tar-1.35-8.fc44.aarch64
tpm2-tss-4.1.3-9.fc44.aarch64
tree-sitter-srpm-macros-0.4.2-2.fc44.noarch
unzip-6.0-69.fc44.aarch64
util-linux-2.41.3-12.fc44.aarch64
util-linux-core-2.41.3-12.fc44.aarch64
which-2.23-4.fc44.aarch64
xxhash-libs-0.8.3-4.fc44.aarch64
xz-5.8.2-2.fc44.aarch64
xz-libs-5.8.2-2.fc44.aarch64
zig-srpm-macros-1-8.fc44.noarch
zip-3.0-45.fc44.aarch64
zlib-ng-compat-2.3.2-3.fc44.aarch64
zstd-1.5.7-5.fc44.aarch64
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: aarch64
Building for target aarch64
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-aarch64-1769501915.580116/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-r2ajdm7e/bcftools/bcftools.spec) Config(child) 0 minutes 25 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-aarch64)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1769501915.580116/root.
INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1769501915.580116/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-aarch64-1769501915.580116/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.aarch64
  rpm-sequoia-1.10.0-2.fc44.aarch64
  dnf5-5.3.0.0-7.fc44.aarch64
  dnf5-plugins-5.3.0.0-7.fc44.aarch64
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: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.fc44.src.rpm
Updating and loading repositories:
 Copr repository                        100% |  17.4 KiB/s |   1.5 KiB |  00m00s
 fedora                                 100% |  66.2 KiB/s |  11.7 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                      aarch64 0:16.0.1-0.3.fc44.1    fedora     110.6 MiB
 gsl-devel                aarch64 0:2.8-3.fc44           fedora       1.6 MiB
 htslib-devel             aarch64 0:1.23-1.fc44          copr_base  449.9 KiB
 htslib-tools             aarch64 0:1.23-1.fc44          copr_base    3.4 MiB
 make                     aarch64 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         aarch64 4:5.42.0-521.fc44      fedora     174.5 KiB
 zlib-ng-compat-devel     aarch64 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       aarch64 0:13.05-3.fc44         fedora     707.7 KiB
 cmake-filesystem         aarch64 0:3.31.10-5.fc44       fedora       0.0   B
 cpp                      aarch64 0:16.0.1-0.3.fc44.1    fedora      39.9 MiB
 emacs-filesystem         aarch64 1:30.2-2.fc44          fedora       0.0   B
 expat                    aarch64 0:2.7.3-2.fc44         fedora     360.7 KiB
 gcc-plugin-annobin       aarch64 0:16.0.1-0.3.fc44.1    fedora      69.2 KiB
 gettext                  aarch64 0:0.26-4.fc44          fedora      13.5 MiB
 gettext-common-devel     noarch  0:0.26-4.fc44          fedora     593.4 KiB
 gettext-devel            aarch64 0:0.26-4.fc44          fedora       1.4 MiB
 gettext-envsubst         aarch64 0:0.26-4.fc44          fedora     106.5 KiB
 gettext-libs             aarch64 0:0.26-4.fc44          fedora       2.3 MiB
 gettext-runtime          aarch64 0:0.26-4.fc44          fedora     775.5 KiB
 glibc-devel              aarch64 0:2.42.9000-25.fc44    fedora       2.3 MiB
 groff-base               aarch64 0:1.23.0-12.fc44       fedora       4.2 MiB
 gsl                      aarch64 0:2.8-3.fc44           fedora       3.4 MiB
 htslib                   aarch64 0:1.23-1.fc44          copr_base    1.3 MiB
 kernel-headers           aarch64 0:6.19.0-0.rc6.43.fc44 fedora       6.8 MiB
 libasan                  aarch64 0:16.0.1-0.3.fc44.1    fedora       1.5 MiB
 libatomic                aarch64 0:16.0.1-0.3.fc44.1    fedora      77.4 KiB
 libmpc                   aarch64 0:1.3.1-9.fc44         fedora     152.5 KiB
 libtextstyle             aarch64 0:0.26-4.fc44          fedora     199.1 KiB
 libubsan                 aarch64 0:16.0.1-0.3.fc44.1    fedora     475.8 KiB
 libxcrypt-devel          aarch64 0:4.5.2-3.fc44         fedora      31.0 KiB
 m4                       aarch64 0:1.4.20-3.fc44        fedora     859.4 KiB
 mpdecimal                aarch64 0:4.0.1-3.fc44         fedora     281.1 KiB
 ncurses                  aarch64 0:6.5-9.20250614.fc44  fedora     892.7 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                   aarch64 0:1.89-521.fc44        fedora     545.2 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         aarch64 0:2.191-522.fc44       fedora     135.5 KiB
 perl-Devel-PPPort        aarch64 0:3.73-522.fc44        fedora     917.7 KiB
 perl-Digest              noarch  0:1.20-521.fc44        fedora      35.3 KiB
 perl-Digest-MD5          aarch64 0:2.59-521.fc44        fedora     103.6 KiB
 perl-DynaLoader          aarch64 0:1.57-521.fc44        fedora      32.1 KiB
 perl-Encode              aarch64 4:3.21-521.fc44        fedora       4.8 MiB
 perl-Errno               aarch64 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               aarch64 0:1.20-521.fc44        fedora      92.7 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           aarch64 0:0.32-521.fc44        fedora      98.9 KiB
 perl-Hash-Util-FieldHash aarch64 0:1.27-521.fc44        fedora     106.5 KiB
 perl-IO                  aarch64 0:1.55-521.fc44        fedora     191.3 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         aarch64 0:3.16-521.fc44        fedora      93.9 KiB
 perl-Net-SSLeay          aarch64 0:1.94-12.fc44         fedora       1.4 MiB
 perl-POSIX               aarch64 0:2.23-521.fc44        fedora     263.3 KiB
 perl-PathTools           aarch64 0:3.94-521.fc44        fedora     223.9 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   aarch64 5:1.70-2.fc44          fedora     152.8 KiB
 perl-SelectSaver         noarch  0:1.02-521.fc44        fedora       2.2 KiB
 perl-Socket              aarch64 4:2.040-3.fc44         fedora     144.1 KiB
 perl-Storable            aarch64 1:3.37-522.fc44        fedora     243.1 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          aarch64 4:1.9778-521.fc44      fedora     151.6 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               aarch64 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                 aarch64 0:0.65-521.fc44        fedora       8.5 KiB
 perl-libnet              noarch  0:3.15-522.fc44        fedora     289.4 KiB
 perl-libs                aarch64 4:5.42.0-521.fc44      fedora      11.6 MiB
 perl-locale              noarch  0:1.13-521.fc44        fedora       6.1 KiB
 perl-mro                 aarch64 0:1.29-521.fc44        fedora      81.4 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             aarch64 1:2.43-521.fc44        fedora     134.9 KiB
 perl-threads-shared      aarch64 0:1.70-521.fc44        fedora     103.5 KiB
 perl-vars                noarch  0:1.05-521.fc44        fedora       3.9 KiB
 perl-version             aarch64 9:0.99.33-522.fc44     fedora     160.6 KiB
 python-pip-wheel         noarch  0:25.3-2.fc44          fedora       1.2 MiB
 python3                  aarch64 0:3.14.2-3.fc44        fedora      84.7 KiB
 python3-libs             aarch64 0:3.14.2-3.fc44        fedora      45.3 MiB
 python3-pyparsing        noarch  0:3.1.2-15.fc44        fedora       1.0 MiB
 systemtap-sdt-devel      aarch64 0:5.4-3.fc44           fedora     184.0 KiB
 systemtap-sdt-dtrace     aarch64 0:5.4-3.fc44           fedora     180.6 KiB
 tzdata                   noarch  0:2025c-2.fc44         fedora       1.2 MiB

Transaction Summary:
 Installing:       124 packages

Total size of inbound packages is 89 MiB. Need to download 89 MiB.
After this operation, 286 MiB extra will be used (install 286 MiB, remove 0 B).
[  1/124] autoconf-0:2.72-10.fc44.noarc 100% |  42.7 MiB/s | 830.9 KiB |  00m00s
[  2/124] automake-0:1.18.1-4.fc44.noar 100% |  29.4 MiB/s | 723.6 KiB |  00m00s
[  3/124] make-1:4.4.1-12.fc44.aarch64  100% | 142.5 MiB/s | 583.6 KiB |  00m00s
[  4/124] perl-ExtUtils-Embed-0:1.35-52 100% |   8.5 MiB/s |  17.3 KiB |  00m00s
[  5/124] perl-File-Temp-1:0.231.200-2. 100% |  29.1 MiB/s |  59.6 KiB |  00m00s
[  6/124] perl-FindBin-0:1.54-521.fc44. 100% |   6.8 MiB/s |  13.9 KiB |  00m00s
[  7/124] perl-Getopt-Long-1:2.58-521.f 100% |  31.1 MiB/s |  63.6 KiB |  00m00s
[  8/124] perl-interpreter-4:5.42.0-521 100% |  23.4 MiB/s |  72.0 KiB |  00m00s
[  9/124] zlib-ng-compat-devel-0:2.3.2- 100% |  18.6 MiB/s |  38.0 KiB |  00m00s
[ 10/124] htslib-devel-0:1.23-1.fc44.aa 100% |  11.6 MiB/s | 106.9 KiB |  00m00s
[ 11/124] htslib-tools-0:1.23-1.fc44.aa 100% |  89.3 MiB/s | 731.9 KiB |  00m00s
[ 12/124] gsl-devel-0:2.8-3.fc44.aarch6 100% |  13.1 MiB/s | 655.2 KiB |  00m00s
[ 13/124] emacs-filesystem-1:30.2-2.fc4 100% |   2.0 MiB/s |   8.0 KiB |  00m00s
[ 14/124] m4-0:1.4.20-3.fc44.aarch64    100% | 108.3 MiB/s | 332.7 KiB |  00m00s
[ 15/124] gettext-devel-0:0.26-4.fc44.a 100% |  40.3 MiB/s | 289.1 KiB |  00m00s
[ 16/124] perl-Carp-0:1.54-521.fc44.noa 100% |   7.0 MiB/s |  28.8 KiB |  00m00s
[ 17/124] perl-Class-Struct-0:0.68-521. 100% |  10.6 MiB/s |  21.7 KiB |  00m00s
[ 18/124] perl-Data-Dumper-0:2.191-522. 100% |  26.9 MiB/s |  55.2 KiB |  00m00s
[ 19/124] perl-Errno-0:1.38-521.fc44.aa 100% |   7.1 MiB/s |  14.5 KiB |  00m00s
[ 20/124] perl-Exporter-0:5.79-521.fc44 100% |  15.0 MiB/s |  30.8 KiB |  00m00s
[ 21/124] perl-File-Basename-0:2.86-521 100% |  16.4 MiB/s |  16.8 KiB |  00m00s
[ 22/124] perl-File-Compare-0:1.100.800 100% |   6.3 MiB/s |  12.9 KiB |  00m00s
[ 23/124] perl-File-Copy-0:2.41-521.fc4 100% |   9.7 MiB/s |  19.8 KiB |  00m00s
[ 24/124] perl-File-Find-0:1.44-521.fc4 100% |  12.2 MiB/s |  25.0 KiB |  00m00s
[ 25/124] perl-File-stat-0:1.14-521.fc4 100% |   8.2 MiB/s |  16.7 KiB |  00m00s
[ 26/124] perl-IO-0:1.55-521.fc44.aarch 100% |  39.9 MiB/s |  81.8 KiB |  00m00s
[ 27/124] perl-POSIX-0:2.23-521.fc44.aa 100% |  47.4 MiB/s |  97.1 KiB |  00m00s
[ 28/124] perl-PathTools-0:3.94-521.fc4 100% |  28.4 MiB/s |  87.2 KiB |  00m00s
[ 29/124] perl-Text-ParseWords-0:3.31-5 100% |   4.0 MiB/s |  16.5 KiB |  00m00s
[ 30/124] perl-constant-0:1.33-522.fc44 100% |  11.2 MiB/s |  22.9 KiB |  00m00s
[ 31/124] perl-File-Path-0:2.18-522.fc4 100% |  17.2 MiB/s |  35.3 KiB |  00m00s
[ 32/124] perl-Thread-Queue-0:3.14-521. 100% |   5.2 MiB/s |  21.3 KiB |  00m00s
[ 33/124] perl-libs-4:5.42.0-521.fc44.a 100% | 178.2 MiB/s |   2.5 MiB |  00m00s
[ 34/124] perl-threads-1:2.43-521.fc44. 100% |   9.2 MiB/s |  56.8 KiB |  00m00s
[ 35/124] glibc-devel-0:2.42.9000-25.fc 100% |  34.7 MiB/s | 604.7 KiB |  00m00s
[ 36/124] libasan-0:16.0.1-0.3.fc44.1.a 100% |  17.2 MiB/s | 494.6 KiB |  00m00s
[ 37/124] cpp-0:16.0.1-0.3.fc44.1.aarch 100% | 209.0 MiB/s |  13.2 MiB |  00m00s
[ 38/124] libatomic-0:16.0.1-0.3.fc44.1 100% |   2.1 MiB/s |  33.8 KiB |  00m00s
[ 39/124] libmpc-0:1.3.1-9.fc44.aarch64 100% |  34.5 MiB/s |  70.6 KiB |  00m00s
[ 40/124] libubsan-0:16.0.1-0.3.fc44.1. 100% |  67.1 MiB/s | 206.2 KiB |  00m00s
[ 41/124] perl-devel-4:5.42.0-521.fc44. 100% |  92.5 MiB/s | 662.8 KiB |  00m00s
[ 42/124] gsl-0:2.8-3.fc44.aarch64      100% |  81.7 MiB/s |   1.1 MiB |  00m00s
[ 43/124] perl-Fcntl-0:1.20-521.fc44.aa 100% |   5.7 MiB/s |  29.4 KiB |  00m00s
[ 44/124] perl-Scalar-List-Utils-5:1.70 100% |  35.7 MiB/s |  73.1 KiB |  00m00s
[ 45/124] perl-overload-0:1.40-521.fc44 100% |  22.1 MiB/s |  45.2 KiB |  00m00s
[ 46/124] perl-parent-1:0.244-521.fc44. 100% |   7.3 MiB/s |  14.9 KiB |  00m00s
[ 47/124] perl-Pod-Usage-4:2.05-521.fc4 100% |  13.2 MiB/s |  40.7 KiB |  00m00s
[ 48/124] perl-base-0:2.27-521.fc44.noa 100% |   7.8 MiB/s |  15.9 KiB |  00m00s
[ 49/124] cmake-filesystem-0:3.31.10-5. 100% |   4.6 MiB/s |  14.1 KiB |  00m00s
[ 50/124] gcc-0:16.0.1-0.3.fc44.1.aarch 100% | 167.3 MiB/s |  39.7 MiB |  00m00s
[ 51/124] htslib-0:1.23-1.fc44.aarch64  100% |  12.9 MiB/s | 555.8 KiB |  00m00s
[ 52/124] gettext-0:0.26-4.fc44.aarch64 100% |  34.8 MiB/s |   1.6 MiB |  00m00s
[ 53/124] gettext-common-devel-0:0.26-4 100% |  49.1 MiB/s | 603.3 KiB |  00m00s
[ 54/124] gettext-libs-0:0.26-4.fc44.aa 100% |  69.7 MiB/s | 785.4 KiB |  00m00s
[ 55/124] perl-B-0:1.89-521.fc44.aarch6 100% |  34.6 MiB/s | 177.4 KiB |  00m00s
[ 56/124] perl-Symbol-0:1.09-521.fc44.n 100% |   4.5 MiB/s |  13.9 KiB |  00m00s
[ 57/124] perl-SelectSaver-0:1.02-521.f 100% |   5.6 MiB/s |  11.4 KiB |  00m00s
[ 58/124] perl-locale-0:1.13-521.fc44.n 100% |   6.4 MiB/s |  13.2 KiB |  00m00s
[ 59/124] perl-Socket-4:2.040-3.fc44.aa 100% |  26.8 MiB/s |  54.9 KiB |  00m00s
[ 60/124] perl-DynaLoader-0:1.57-521.fc 100% |  25.0 MiB/s |  25.6 KiB |  00m00s
[ 61/124] perl-vars-0:1.05-521.fc44.noa 100% |  12.3 MiB/s |  12.6 KiB |  00m00s
[ 62/124] perl-Encode-4:3.21-521.fc44.a 100% | 173.6 MiB/s |   1.0 MiB |  00m00s
[ 63/124] kernel-headers-0:6.19.0-0.rc6 100% | 188.6 MiB/s |   1.7 MiB |  00m00s
[ 64/124] libxcrypt-devel-0:4.5.2-3.fc4 100% |   5.9 MiB/s |  30.0 KiB |  00m00s
[ 65/124] perl-threads-shared-0:1.70-52 100% |   3.9 MiB/s |  44.2 KiB |  00m00s
[ 66/124] perl-ExtUtils-Constant-0:0.25 100% |  21.2 MiB/s |  43.5 KiB |  00m00s
[ 67/124] perl-Devel-PPPort-0:3.73-522. 100% |  52.9 MiB/s | 216.7 KiB |  00m00s
[ 68/124] perl-ExtUtils-Install-0:2.22- 100% |   7.1 MiB/s |  43.5 KiB |  00m00s
[ 69/124] perl-Text-Tabs+Wrap-0:2024.00 100% |   7.1 MiB/s |  21.8 KiB |  00m00s
[ 70/124] perl-ExtUtils-ParseXS-1:3.61- 100% |  47.6 MiB/s | 292.6 KiB |  00m00s
[ 71/124] systemtap-sdt-devel-0:5.4-3.f 100% |  13.6 MiB/s |  69.8 KiB |  00m00s
[ 72/124] perl-mro-0:1.29-521.fc44.aarc 100% |   9.6 MiB/s |  29.4 KiB |  00m00s
[ 73/124] systemtap-sdt-dtrace-0:5.4-3. 100% |  13.8 MiB/s |  70.5 KiB |  00m00s
[ 74/124] perl-overloading-0:0.02-521.f 100% |   6.1 MiB/s |  12.6 KiB |  00m00s
[ 75/124] perl-Pod-Perldoc-0:3.28.01-52 100% |  42.0 MiB/s |  86.1 KiB |  00m00s
[ 76/124] perl-podlators-1:6.0.2-521.fc 100% |  62.7 MiB/s | 128.5 KiB |  00m00s
[ 77/124] gettext-runtime-0:0.26-4.fc44 100% |  55.0 MiB/s | 169.1 KiB |  00m00s
[ 78/124] libtextstyle-0:0.26-4.fc44.aa 100% |  29.6 MiB/s |  90.8 KiB |  00m00s
[ 79/124] perl-if-0:0.61.000-521.fc44.n 100% |   6.7 MiB/s |  13.7 KiB |  00m00s
[ 80/124] perl-Getopt-Std-0:1.14-521.fc 100% |  15.0 MiB/s |  15.3 KiB |  00m00s
[ 81/124] perl-MIME-Base64-0:3.16-521.f 100% |  14.6 MiB/s |  29.9 KiB |  00m00s
[ 82/124] perl-Storable-1:3.37-522.fc44 100% |  46.7 MiB/s |  95.7 KiB |  00m00s
[ 83/124] perl-AutoSplit-0:5.74-521.fc4 100% |   6.9 MiB/s |  21.3 KiB |  00m00s
[ 84/124] perl-fields-0:2.27-521.fc44.n 100% |   5.1 MiB/s |  15.8 KiB |  00m00s
[ 85/124] python3-0:3.14.2-3.fc44.aarch 100% |  13.8 MiB/s |  28.2 KiB |  00m00s
[ 86/124] perl-ExtUtils-MakeMaker-2:7.7 100% |  48.0 MiB/s | 294.6 KiB |  00m00s
[ 87/124] python3-pyparsing-0:3.1.2-15. 100% |  70.0 MiB/s | 286.8 KiB |  00m00s
[ 88/124] perl-HTTP-Tiny-0:0.092-2.fc44 100% |  18.6 MiB/s |  57.2 KiB |  00m00s
[ 89/124] perl-IPC-Open3-0:1.24-521.fc4 100% |   5.8 MiB/s |  23.6 KiB |  00m00s
[ 90/124] perl-Pod-Simple-1:3.47-4.fc44 100% |  43.0 MiB/s | 220.0 KiB |  00m00s
[ 91/124] groff-base-0:1.23.0-12.fc44.a 100% |  89.9 MiB/s |   1.1 MiB |  00m00s
[ 92/124] perl-Term-ANSIColor-0:5.01-52 100% |   9.3 MiB/s |  47.7 KiB |  00m00s
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--------------------------------------------------------------------------------
[124/124] Total                         100% | 230.6 MiB/s |  88.5 MiB |  00m00s
Running transaction
[  1/126] Verify package files          100% | 432.0   B/s | 124.0   B |  00m00s
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[ 10/126] Installing python-pip-wheel-0 100% | 602.0 MiB/s |   1.2 MiB |  00m00s
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Warning: skipped OpenPGP checks for 3 packages from repository: copr_base
Complete!
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.fc44.src.rpm
Updating and loading repositories:
 Copr repository                        100% |   6.0 KiB/s |   1.5 KiB |  00m00s
 fedora                                 100% |  37.0 KiB/s |  11.7 KiB |  00m00s
Repositories loaded.
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.aarch64" is already installed.
Package "gsl-devel-2.8-3.fc44.aarch64" is already installed.
Package "htslib-devel-1.23-1.fc44.aarch64" is already installed.
Package "htslib-tools-1.23-1.fc44.aarch64" is already installed.
Package "make-1:4.4.1-12.fc44.aarch64" 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.aarch64" is already installed.
Package "zlib-ng-compat-devel-2.3.2-3.fc44.aarch64" is already installed.

Nothing to do.
Finish: build setup for bcftools-1.23-1.fc44.src.rpm
Start: rpmbuild bcftools-1.23-1.fc44.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1769040000
Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.tnQrLy
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.mKfCBJ
+ 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 .
+ echo 'Patch #0 (bcftools-1.23-perl-fix-stray-errors-ldflags.patch):'
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.wYWrkm
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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 $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./htslib-1.23/config.sub
+ '[' -f /usr/lib/rpm/redhat/config.sub ']'
+ /usr/bin/rm -f ./htslib-1.23/config.sub
++ basename ./htslib-1.23/config.sub
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./htslib-1.23/config.sub
'/usr/lib/rpm/redhat/config.sub' -> './htslib-1.23/config.sub'
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors' ']'
++ find . -name ltmain.sh
++ grep -q runstatedir=DIR ./configure
++ echo --runstatedir=/run
+ ./configure --build=aarch64-redhat-linux --host=aarch64-redhat-linux --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/bin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --runstatedir=/run --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  ' --prefix=/usr --with-htslib=system --enable-perl-filters --enable-libgsl '--with-bcf-plugin-path=/usr/local/libexec/bcftools:$(plugindir)'
checking for aarch64-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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 -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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 -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I.   -DUSE_GPL -c -o main.o main.c
gcc -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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.F5IufR
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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.aarch64 --unique-debug-src-base bcftools-1.23-1.fc44.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/bcftools-1.23-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.aarch64
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 13 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.kNk5uK
+ 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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -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 (0x0000ffff9b9f0000)
+ 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/test.pl: module IO::Pty not found; skipping usage tests
test_usage:
	bcftools
test_tabix:
	tabix /tmp/C7h1uaLsdt/merge.a.vcf.gz 2:3199812-3199812
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/C7h1uaLsdt/merge.a.bcf 2:3199812-3199812
.. ok

test_tabix:
	tabix /tmp/C7h1uaLsdt/merge.a.vcf.gz 1:3000151-3000151
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/C7h1uaLsdt/merge.a.bcf 1:3000151-3000151
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/C7h1uaLsdt/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/C7h1uaLsdt/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/C7h1uaLsdt/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -H /tmp/C7h1uaLsdt/large_chrom_csi_limit.bcf chr20
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/C7h1uaLsdt/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/C7h1uaLsdt/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/C7h1uaLsdt/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/idx.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/idx.bcf.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/C7h1uaLsdt/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/C7h1uaLsdt/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -s /tmp/C7h1uaLsdt/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/empty.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools index -n /tmp/C7h1uaLsdt/empty.bcf.csi
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools stats -s - /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/check.1.chk /tmp/C7h1uaLsdt/check.2.chk /tmp/C7h1uaLsdt/check.3.chk /tmp/C7h1uaLsdt/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/C7h1uaLsdt/stats.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/stats.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/isec.match-id.1.1.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec.match-id.1.1.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec.a.vcf.gz /tmp/C7h1uaLsdt/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -C -c any /tmp/C7h1uaLsdt/isec.a.vcf.gz /tmp/C7h1uaLsdt/isec.b.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec --no-version   -T /tmp/C7h1uaLsdt/isec.tab.gz /tmp/C7h1uaLsdt/isec.a.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools isec -Ob  -T /tmp/C7h1uaLsdt/isec.tab.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec-miss.1.1.vcf.gz /tmp/C7h1uaLsdt/isec-miss.1.2.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec-miss.1.1.vcf.gz /tmp/C7h1uaLsdt/isec-miss.1.2.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec-miss.2.1.vcf.gz /tmp/C7h1uaLsdt/isec-miss.2.2.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/isec-miss.2.1.vcf.gz /tmp/C7h1uaLsdt/isec-miss.2.2.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.broken-gvcf.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.broken-gvcf.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.broken-gvcf.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.broken-gvcf.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.symbolic.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.symbolic.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.symbolic.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.symbolic.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.multiallelics.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.multiallelics.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.multiallelics.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.multiallelics.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.multiallelics.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.multiallelics.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.multiallelics.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.multiallelics.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.12.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.12.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.12.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.12.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.12.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.12.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.12.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.12.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.phased.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.phased.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.phased.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.phased.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.11.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.11.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.11.a.bcf /tmp/C7h1uaLsdt/merge.11.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/C7h1uaLsdt/merge.11.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.join.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.join.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.join.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.join.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.vcf.gz /tmp/C7h1uaLsdt/merge.LPL.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.LPL.a.bcf /tmp/C7h1uaLsdt/merge.LPL.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.vcf.gz /tmp/C7h1uaLsdt/merge.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.vcf.gz /tmp/C7h1uaLsdt/merge.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.bcf /tmp/C7h1uaLsdt/merge.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.bcf /tmp/C7h1uaLsdt/merge.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.vcf.gz /tmp/C7h1uaLsdt/merge.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.vcf.gz /tmp/C7h1uaLsdt/merge.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.bcf /tmp/C7h1uaLsdt/merge.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.bcf /tmp/C7h1uaLsdt/merge.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.vcf.gz /tmp/C7h1uaLsdt/merge.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.vcf.gz /tmp/C7h1uaLsdt/merge.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.bcf /tmp/C7h1uaLsdt/merge.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.a.bcf /tmp/C7h1uaLsdt/merge.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.2.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.3.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.3.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.3.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.3.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.4.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.4.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.4.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.4.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gvcf.merge.1.vcf.gz /tmp/C7h1uaLsdt/gvcf.merge.2.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gvcf.merge.1.vcf.gz /tmp/C7h1uaLsdt/gvcf.merge.2.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gvcf.merge.1.bcf /tmp/C7h1uaLsdt/gvcf.merge.2.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gvcf.merge.1.bcf /tmp/C7h1uaLsdt/gvcf.merge.2.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.2.a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.2.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.2.a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.2.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.2.a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.2.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.2.a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.2.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.2.a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.2.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.2.a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.2.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.3.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.3.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.4.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.4.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.4.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.4.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.5.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.5.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.5.a.bcf /tmp/C7h1uaLsdt/merge.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/C7h1uaLsdt/merge.5.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.6.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.6.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.6.a.bcf /tmp/C7h1uaLsdt/merge.6.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/C7h1uaLsdt/merge.6.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.7.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.7.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.7.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.7.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.8.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.8.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.8.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.8.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.7.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.7.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.7.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.7.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9b.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9c.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9b.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9c.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.bcf /tmp/C7h1uaLsdt/merge.gvcf.9b.bcf /tmp/C7h1uaLsdt/merge.gvcf.9c.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.bcf /tmp/C7h1uaLsdt/merge.gvcf.9b.bcf /tmp/C7h1uaLsdt/merge.gvcf.9c.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9b.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9c.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9b.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9c.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.bcf /tmp/C7h1uaLsdt/merge.gvcf.9b.bcf /tmp/C7h1uaLsdt/merge.gvcf.9c.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.bcf /tmp/C7h1uaLsdt/merge.gvcf.9b.bcf /tmp/C7h1uaLsdt/merge.gvcf.9c.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9b.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9c.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9d.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9b.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9c.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9d.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.bcf /tmp/C7h1uaLsdt/merge.gvcf.9b.bcf /tmp/C7h1uaLsdt/merge.gvcf.9c.bcf /tmp/C7h1uaLsdt/merge.gvcf.9d.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.bcf /tmp/C7h1uaLsdt/merge.gvcf.9b.bcf /tmp/C7h1uaLsdt/merge.gvcf.9c.bcf /tmp/C7h1uaLsdt/merge.gvcf.9d.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9b.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9c.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9d.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9b.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9c.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.9d.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.bcf /tmp/C7h1uaLsdt/merge.gvcf.9b.bcf /tmp/C7h1uaLsdt/merge.gvcf.9c.bcf /tmp/C7h1uaLsdt/merge.gvcf.9d.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.9a.bcf /tmp/C7h1uaLsdt/merge.gvcf.9b.bcf /tmp/C7h1uaLsdt/merge.gvcf.9c.bcf /tmp/C7h1uaLsdt/merge.gvcf.9d.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.noidx.a.vcf.gz /tmp/C7h1uaLsdt/merge.noidx.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.noidx.a.vcf.gz /tmp/C7h1uaLsdt/merge.noidx.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.noidx.a.bcf /tmp/C7h1uaLsdt/merge.noidx.b.bcf /tmp/C7h1uaLsdt/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/C7h1uaLsdt/merge.noidx.a.bcf /tmp/C7h1uaLsdt/merge.noidx.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.noidx.a.bcf /tmp/C7h1uaLsdt/merge.noidx.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.noidx.a.bcf /tmp/C7h1uaLsdt/merge.noidx.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.8.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.8.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.8.a.bcf /tmp/C7h1uaLsdt/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/C7h1uaLsdt/merge.8.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.8.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.8.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.8.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.8.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.9.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.9.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.9.a.bcf /tmp/C7h1uaLsdt/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/C7h1uaLsdt/merge.9.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.9.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.9.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.9.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.9.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.10.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.mrules.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.mrules.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.mrules.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.mrules.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.mrules.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.mrules.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.mrules.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.mrules.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.5.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.5.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.5.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.5.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.5.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.5.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.5.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.5.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.11.a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.11.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.11.a.vcf.gz /tmp/C7h1uaLsdt/merge.gvcf.11.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.11.a.bcf /tmp/C7h1uaLsdt/merge.gvcf.11.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/merge.gvcf.11.a.bcf /tmp/C7h1uaLsdt/merge.gvcf.11.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.string.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.string.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.variantkey.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.vectors.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.4.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.pbinom.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.6.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter-or.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/query.filter-or.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/norm.sort.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m - /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/norm.split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m- /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools norm --no-version -m+ /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -xs NA00003 /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -p /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -P /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -GVsnps /tmp/C7h1uaLsdt/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -GVsnps /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -s ^NA00003 /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob  /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -G /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -a /tmp/C7h1uaLsdt/many.alleles.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -a /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -asA /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -asB /tmp/C7h1uaLsdt/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/C7h1uaLsdt/view.vectors.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob -asA /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/regions.tab.gz /tmp/C7h1uaLsdt/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/C7h1uaLsdt/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/C7h1uaLsdt/regions.tab.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/regions.bed /tmp/C7h1uaLsdt/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/C7h1uaLsdt/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/C7h1uaLsdt/regions.bed /tmp/C7h1uaLsdt/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/C7h1uaLsdt/regions.bed.gz /tmp/C7h1uaLsdt/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/C7h1uaLsdt/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/C7h1uaLsdt/regions.bed.gz /tmp/C7h1uaLsdt/regions.vcf.gz
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools annotate -a /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/annots35.vcf.gz  -c CHROM,POS,~ID,REF,ALT,INFO/src /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots35.vcf.gz  -c CHROM,POS,~ID,REF,ALT,INFO/src /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots4.vcf.gz  -c +INFO /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots4.vcf.gz  -c +INFO /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots11.vcf.gz  -c FMT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots11.vcf.gz  -c FMT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER,FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER,FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=./FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=./FILTER /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate20.src.vcf.gz  -c  FMT/GT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate20.src.vcf.gz  -c  FMT/GT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate20.src.vcf.gz  -c +FMT/GT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate20.src.vcf.gz  -c +FMT/GT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate20.src.vcf.gz  -c -FMT/GT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate20.src.vcf.gz  -c -FMT/GT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/annotate24.src.vcf.gz  -c XX /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annotate24.src.vcf.gz  -c XX /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/annots.id.vcf.gz  -c ALT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots.id.vcf.gz  -c ALT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots.id.vcf.gz  -c +ALT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots.id.vcf.gz  -c +ALT /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots.id.2.vcf.gz  --pair-logic some -c +ID /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots.id.2.vcf.gz  --pair-logic some -c +ID /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots.id.2.vcf.gz  --pair-logic any -c +ID /tmp/C7h1uaLsdt/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/C7h1uaLsdt/annots.id.2.vcf.gz  --pair-logic any -c +ID /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa -i /tmp/C7h1uaLsdt/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/C7h1uaLsdt/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/norm.fa -i /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/split.1.1   && cd /tmp/C7h1uaLsdt/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/C7h1uaLsdt/split.1.2 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.smpl.1.2.txt  && cd /tmp/C7h1uaLsdt/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/C7h1uaLsdt/split.1.3 -S /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.smpl.1.3.txt  && cd /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/split.1.7 -G /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/split.grp.1.1.txt  && cd /tmp/C7h1uaLsdt/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/C7h1uaLsdt/split.2.1   && cd /tmp/C7h1uaLsdt/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/C7h1uaLsdt/scatter.1.1 -n 3 && cd /tmp/C7h1uaLsdt/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/C7h1uaLsdt/scatter.1.2 -s 21,22 && cd /tmp/C7h1uaLsdt/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/C7h1uaLsdt/scatter.1.3 -s 21,22 -x X && cd /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.1.a.vcf.gz /tmp/C7h1uaLsdt/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -G  /tmp/C7h1uaLsdt/concat.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.1.a.vcf.gz /tmp/C7h1uaLsdt/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob   /tmp/C7h1uaLsdt/concat.1.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.1.a.bcf /tmp/C7h1uaLsdt/concat.1.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob   /tmp/C7h1uaLsdt/concat.1.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.2.a.vcf.gz /tmp/C7h1uaLsdt/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -a  /tmp/C7h1uaLsdt/concat.2.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.2.a.bcf /tmp/C7h1uaLsdt/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -a  /tmp/C7h1uaLsdt/concat.2.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.2.a.vcf.gz /tmp/C7h1uaLsdt/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -aD  /tmp/C7h1uaLsdt/concat.2.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.2.a.bcf /tmp/C7h1uaLsdt/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -aD  /tmp/C7h1uaLsdt/concat.2.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.3.a.vcf.gz /tmp/C7h1uaLsdt/concat.3.b.vcf.gz /tmp/C7h1uaLsdt/concat.3.0.vcf.gz /tmp/C7h1uaLsdt/concat.3.c.vcf.gz /tmp/C7h1uaLsdt/concat.3.d.vcf.gz /tmp/C7h1uaLsdt/concat.3.e.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.3.a.vcf.gz /tmp/C7h1uaLsdt/concat.3.b.vcf.gz /tmp/C7h1uaLsdt/concat.3.0.vcf.gz /tmp/C7h1uaLsdt/concat.3.c.vcf.gz /tmp/C7h1uaLsdt/concat.3.d.vcf.gz /tmp/C7h1uaLsdt/concat.3.e.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.3.a.bcf /tmp/C7h1uaLsdt/concat.3.b.bcf /tmp/C7h1uaLsdt/concat.3.0.bcf /tmp/C7h1uaLsdt/concat.3.c.bcf /tmp/C7h1uaLsdt/concat.3.d.bcf /tmp/C7h1uaLsdt/concat.3.e.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.3.a.bcf /tmp/C7h1uaLsdt/concat.3.b.bcf /tmp/C7h1uaLsdt/concat.3.0.bcf /tmp/C7h1uaLsdt/concat.3.c.bcf /tmp/C7h1uaLsdt/concat.3.d.bcf /tmp/C7h1uaLsdt/concat.3.e.bcf /tmp/C7h1uaLsdt/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: 786116050
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat --naive-force /tmp/C7h1uaLsdt/naive_concat.0.bcf /tmp/C7h1uaLsdt/naive_concat.1.bcf /tmp/C7h1uaLsdt/naive_concat.2.bcf /tmp/C7h1uaLsdt/naive_concat.3.bcf /tmp/C7h1uaLsdt/naive_concat.4.bcf /tmp/C7h1uaLsdt/naive_concat.5.bcf /tmp/C7h1uaLsdt/naive_concat.6.bcf /tmp/C7h1uaLsdt/naive_concat.7.bcf /tmp/C7h1uaLsdt/naive_concat.8.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/naive_concat.0.vcf.gz /tmp/C7h1uaLsdt/naive_concat.1.vcf.gz /tmp/C7h1uaLsdt/naive_concat.2.vcf.gz /tmp/C7h1uaLsdt/naive_concat.3.vcf.gz /tmp/C7h1uaLsdt/naive_concat.4.vcf.gz /tmp/C7h1uaLsdt/naive_concat.5.vcf.gz /tmp/C7h1uaLsdt/naive_concat.6.vcf.gz /tmp/C7h1uaLsdt/naive_concat.7.vcf.gz /tmp/C7h1uaLsdt/naive_concat.8.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.4.a.vcf.gz /tmp/C7h1uaLsdt/concat.4.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l  /tmp/C7h1uaLsdt/concat.4.a.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.4.a.bcf /tmp/C7h1uaLsdt/concat.4.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools concat -Ob -l  /tmp/C7h1uaLsdt/concat.4.a.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.vcf.gz /tmp/C7h1uaLsdt/concat.5.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.vcf.gz /tmp/C7h1uaLsdt/concat.5.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.bcf /tmp/C7h1uaLsdt/concat.5.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.bcf /tmp/C7h1uaLsdt/concat.5.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.bcf /tmp/C7h1uaLsdt/concat.5.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.bcf /tmp/C7h1uaLsdt/concat.5.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.vcf.gz /tmp/C7h1uaLsdt/concat.5.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.vcf.gz /tmp/C7h1uaLsdt/concat.5.b.vcf.gz /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.bcf /tmp/C7h1uaLsdt/concat.5.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/concat.5.a.bcf /tmp/C7h1uaLsdt/concat.5.b.bcf /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/empty.bcf | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/rename.map -Ov /tmp/C7h1uaLsdt/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/C7h1uaLsdt/rename.map -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.hap-missing.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools view -Ob /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/consensus.1.chain.new >/dev/null; cat /tmp/C7h1uaLsdt/consensus.1.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/consensus.2.chain.new >/dev/null; cat /tmp/C7h1uaLsdt/consensus.2.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/consensus.3.chain.new >/dev/null; cat /tmp/C7h1uaLsdt/consensus.3.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/test/consensus.fa -H 1  -c /tmp/C7h1uaLsdt/consensus.4.chain.new >/dev/null; cat /tmp/C7h1uaLsdt/consensus.4.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23-build/bcftools-1.23/bcftools consensus /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.gvcf.a.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.gvcf.b.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.gvcf.a.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.gvcf.b.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.2.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.1.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.ntop.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.ntop.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/gtcheck.5.vcf.gz -g /tmp/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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/C7h1uaLsdt/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.aarch64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.E9447d
+ 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.CHKvYl
+ 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(aarch-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 ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(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_2.17)(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.aarch64
Provides: bcftools-debugsource = 1.23-1.fc44 bcftools-debugsource(aarch-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.aarch64
Provides: bcftools-debuginfo = 1.23-1.fc44 bcftools-debuginfo(aarch-64) = 1.23-1.fc44 debuginfo(build-id) = 0148ef9ec47a2f5130b380d6636ba25a9af8b260 debuginfo(build-id) = 02fc850399044089b78f93b6a999f542fa5c343a debuginfo(build-id) = 084b74b1916c52b253b41fa6a12b36e9665075d5 debuginfo(build-id) = 09fa4484fc61830e85f2b49b886f4e3f989497c0 debuginfo(build-id) = 0b1a2a25d1195c05e27b3d212bd4f20dcc1ac870 debuginfo(build-id) = 0be0985846ab6cca544ae42493c8637b928daa09 debuginfo(build-id) = 0c8ca157d82cbebf73d0e20779ccfe61808f71a9 debuginfo(build-id) = 0da484e5437575227ad40aa358ad614ab1706b15 debuginfo(build-id) = 14a6605b056fddde1ac7d1cbe14d93bc3b7b4d3a debuginfo(build-id) = 16c5b0e1e329c00f6435d5d7d172650c87206398 debuginfo(build-id) = 1986cc2c2bda12a2b1f44a3e226275b0e35d87de debuginfo(build-id) = 208965193217e84adcb002bbbbbfe94704bde355 debuginfo(build-id) = 30568fe3669eaf27e021293d8748ac83ebfa8f9a debuginfo(build-id) = 4126b2d6d554cdf35e46ece60d2f7acccc3a81f9 debuginfo(build-id) = 48bd620a4f40c4fe9587fd2522847729550a47b3 debuginfo(build-id) = 4d4e6c8a84641e992c62b038555f889cb6ed2a63 debuginfo(build-id) = 4d728f8df499ee4b24c4b46bbb8b5163a46472a8 debuginfo(build-id) = 5080f19c342e98135675c87df68f4132b55f0cfd debuginfo(build-id) = 580fbb06c0e6c3057183f92918fa454348fd3796 debuginfo(build-id) = 5d8312b8f51d9f8eebba84e95f63e63de46a16db debuginfo(build-id) = 5e5d203f7c2be02c898ea02d8d46127bcbecaa90 debuginfo(build-id) = 69b7c5c89436d02967ab5bcc921e8fab0440953a debuginfo(build-id) = 6e663975cb2ea00db67d751c4980a7b7d6bcae21 debuginfo(build-id) = 6fd7aa661fab667aeec34348d5263368ac3e5051 debuginfo(build-id) = 816cd7bf17ee7b8175abd9032f678edd05b0f54b debuginfo(build-id) = 85045cbb7ea839c65090451da050a1e7f969c2c1 debuginfo(build-id) = 92faa8c74a18ca14bcb81296981ba6f72539b8ec debuginfo(build-id) = 98cb7a2219ffc11b10a131bdfc738803b4164d51 debuginfo(build-id) = a9d9ad62bce379c5f0ae99a5f70bd51b8d683fce debuginfo(build-id) = b4123bae92917a84afa8044de0e3765098e512cb debuginfo(build-id) = b78adeb2ae1d5cff58eb80af78c9001340a1525d debuginfo(build-id) = b97bed602ef425f8b69f878634fdf3f0fd183e6b debuginfo(build-id) = b99e34c3b8f599d1f32921d136d504fa1edfa494 debuginfo(build-id) = be3c20535478f14f44dce29d81f2b2313e4e1d4c debuginfo(build-id) = cceb34b413af96367217a3653af4f73019587e66 debuginfo(build-id) = cec07184d8cf6f7a261fdbb1a4f81f9c8074d9cf debuginfo(build-id) = d1bbad6c00bcf8382d2365a9050048c6721dd547 debuginfo(build-id) = e0b64a0441a2e7bbb8db9b7d077d156949654ff1 debuginfo(build-id) = e2ba40cc708459a50fe86aab63c77682232f0243 debuginfo(build-id) = e72627b7781569c30da92a979700dd57a72a4862 debuginfo(build-id) = f375c3201f3e6d5d094df2826fab75d30ac91b46 debuginfo(build-id) = fa12b4546d402da221662106a02ee21264dc4f93
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: bcftools-debugsource(aarch-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.aarch64.rpm
Wrote: /builddir/build/RPMS/bcftools-debugsource-1.23-1.fc44.aarch64.rpm
Wrote: /builddir/build/RPMS/bcftools-debuginfo-1.23-1.fc44.aarch64.rpm
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.eqm3pl
+ 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-aarch64-1769501915.580116/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 24 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-debuginfo",
            "epoch": null,
            "version": "1.23",
            "release": "1.fc44",
            "arch": "aarch64"
        },
        {
            "name": "bcftools-debugsource",
            "epoch": null,
            "version": "1.23",
            "release": "1.fc44",
            "arch": "aarch64"
        },
        {
            "name": "bcftools",
            "epoch": null,
            "version": "1.23",
            "release": "1.fc44",
            "arch": "src"
        },
        {
            "name": "bcftools",
            "epoch": null,
            "version": "1.23",
            "release": "1.fc44",
            "arch": "aarch64"
        }
    ]
}
RPMResults finished