Warning: Permanently added '2620:52:6:1161:dead:beef:cafe:c10f' (ED25519) to the list of known hosts.

You can reproduce this build on your computer by running:

  sudo dnf install copr-rpmbuild
  /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/10066103-epel-10-ppc64le --chroot epel-10-ppc64le


Version: 1.6
PID: 2464
Logging PID: 2466
Task:
{'allow_user_ssh': False,
 'appstream': False,
 'background': False,
 'build_id': 10066103,
 'buildroot_pkgs': [],
 'chroot': 'epel-10-ppc64le',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': 'e09d35abfce8fffc295a0fcc8191ba4c17c19afc',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/ron/bioinformatics/bcftools',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'bcftools',
 'package_version': '1.23-1',
 'project_dirname': 'bioinformatics',
 'project_name': 'bioinformatics',
 'project_owner': 'ron',
 'repo_priority': None,
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/ron/bioinformatics/epel-10-ppc64le/',
            'id': 'copr_base',
            'name': 'Copr repository',
            'priority': None}],
 'sandbox': 'ron/bioinformatics--ron',
 'source_json': {},
 'source_type': None,
 'ssh_public_keys': None,
 'storage': 0,
 'submitter': 'ron',
 'tags': ['arch_power9'],
 'task_id': '10066103-epel-10-ppc64le',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

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

Running: git checkout e09d35abfce8fffc295a0fcc8191ba4c17c19afc --

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

You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by switching back to a branch.

If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -c with the switch command. Example:

  git switch -c <new-branch-name>

Or undo this operation with:

  git switch -

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

HEAD is now at e09d35a automatic import of bcftools

Running: dist-git-client sources

cmd: ['dist-git-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-biuogqtd/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  17.9M      0 --:--:-- --:--:-- --:--:-- 17.9M
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-biuogqtd/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-biuogqtd/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1769502186.073250 -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-biuogqtd/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-biuogqtd/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1769502186.073250 -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-biuogqtd/bcftools/bcftools.spec)  Config(centos-stream+epel-10-ppc64le)
Start: clean chroot
Finish: clean chroot
Mock Version: 6.6
INFO: Mock Version: 6.6
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/centos-stream+epel-10-ppc64le-bootstrap-1769502186.073250/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: quay.io/centos/centos:stream10
INFO: Pulling image: quay.io/centos/centos:stream10
INFO: Tagging container image as mock-bootstrap-68dc5003-0cbd-418f-b9d7-21bcd885adc3
INFO: Checking that 69646e6961119ce7a22235fb4c52fba809be016ae0e8f6ef0dcc1b6956ec7eb5 image matches host's architecture
INFO: Copy content of container 69646e6961119ce7a22235fb4c52fba809be016ae0e8f6ef0dcc1b6956ec7eb5 to /var/lib/mock/centos-stream+epel-10-ppc64le-bootstrap-1769502186.073250/root
INFO: mounting 69646e6961119ce7a22235fb4c52fba809be016ae0e8f6ef0dcc1b6956ec7eb5 with podman image mount
INFO: image 69646e6961119ce7a22235fb4c52fba809be016ae0e8f6ef0dcc1b6956ec7eb5 as /var/lib/containers/storage/overlay/b4199976636f3ad46ae2b6dafc99ba2f52108b45b627bae5ae459cfa6277de10/merged
INFO: umounting image 69646e6961119ce7a22235fb4c52fba809be016ae0e8f6ef0dcc1b6956ec7eb5 (/var/lib/containers/storage/overlay/b4199976636f3ad46ae2b6dafc99ba2f52108b45b627bae5ae459cfa6277de10/merged) with podman image umount
INFO: Removing image mock-bootstrap-68dc5003-0cbd-418f-b9d7-21bcd885adc3
INFO: Package manager dnf4 detected and used (fallback)
INFO: Not updating bootstrap chroot, bootstrap_image_ready=True
Start(bootstrap): creating root cache
Finish(bootstrap): creating root cache
Finish(bootstrap): chroot init
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/centos-stream+epel-10-ppc64le-1769502186.073250/root.
INFO: calling preinit hooks
INFO: enabled root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Package manager dnf4 detected and used (direct choice)
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.19.1.1-21.el10.ppc64le
  rpm-sequoia-1.9.0.3-1.el10.ppc64le
  python3-dnf-4.20.0-19.el10.noarch
  python3-dnf-plugins-core-4.7.0-10.el10.noarch
  yum-4.20.0-19.el10.noarch
Start: installing minimal buildroot with dnf
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Copr repository                                 7.5 kB/s | 2.4 kB     00:00    
CentOS Stream 10 - BaseOS                       1.4 MB/s | 4.1 MB     00:02    
CentOS Stream 10 - AppStream                    2.3 MB/s | 3.4 MB     00:01    
CentOS Stream 10 - CRB                          255 kB/s | 770 kB     00:03    
CentOS Stream 10 - Extras packages              7.1 kB/s | 8.5 kB     00:01    
Extra Packages for Enterprise Linux 10 - ppc64l  34 kB/s | 6.1 MB     03:02    
Dependencies resolved.
================================================================================
 Package                    Arch    Version                     Repo       Size
================================================================================
Installing:
 bash                       ppc64le 5.2.26-6.el10               baseos    1.9 M
 bzip2                      ppc64le 1.0.8-25.el10               baseos     55 k
 centos-stream-release      noarch  10.0-19.el10                baseos     30 k
 coreutils                  ppc64le 9.5-6.el10                  baseos    1.2 M
 cpio                       ppc64le 2.15-3.el10                 baseos    299 k
 diffutils                  ppc64le 3.10-8.el10                 baseos    419 k
 epel-rpm-macros            noarch  10-6.el10_2                 epel      8.2 k
 findutils                  ppc64le 1:4.10.0-5.el10             baseos    567 k
 gawk                       ppc64le 5.3.0-6.el10                baseos    1.1 M
 glibc-minimal-langpack     ppc64le 2.39-99.el10                baseos     39 k
 grep                       ppc64le 3.11-10.el10                baseos    310 k
 gzip                       ppc64le 1.13-3.el10                 baseos    173 k
 info                       ppc64le 7.1-6.el10                  baseos    201 k
 patch                      ppc64le 2.7.6-26.el10               appstream 142 k
 redhat-rpm-config          noarch  295-1.el10                  appstream  74 k
 rpm-build                  ppc64le 4.19.1.1-21.el10            appstream  76 k
 sed                        ppc64le 4.9-3.el10                  baseos    322 k
 shadow-utils               ppc64le 2:4.15.0-9.el10             baseos    1.4 M
 tar                        ppc64le 2:1.35-10.el10              baseos    885 k
 unzip                      ppc64le 6.0-69.el10                 baseos    192 k
 util-linux                 ppc64le 2.40.2-13.el10              baseos    1.3 M
 which                      ppc64le 2.21-44.el10                baseos     43 k
 xz                         ppc64le 1:5.6.2-4.el10              baseos    484 k
Installing dependencies:
 alternatives               ppc64le 1.30-2.el10                 baseos     44 k
 ansible-srpm-macros        noarch  1-16.1.el10_0               epel       20 k
 audit-libs                 ppc64le 4.0.3-5.el10                baseos    144 k
 authselect                 ppc64le 1.5.0-8.el10                baseos    145 k
 authselect-libs            ppc64le 1.5.0-8.el10                baseos    225 k
 basesystem                 noarch  11-22.el10                  baseos    4.3 k
 binutils                   ppc64le 2.41-60.el10                baseos    6.4 M
 binutils-gold              ppc64le 2.41-60.el10                baseos    1.1 M
 bzip2-libs                 ppc64le 1.0.8-25.el10               baseos     46 k
 ca-certificates            noarch  2025.2.80_v9.0.305-102.el10 baseos    1.1 M
 centos-gpg-keys            noarch  10.0-19.el10                baseos     26 k
 centos-stream-repos        noarch  10.0-19.el10                baseos     12 k
 coreutils-common           ppc64le 9.5-6.el10                  baseos    2.1 M
 cracklib                   ppc64le 2.9.11-8.el10               baseos     98 k
 cracklib-dicts             ppc64le 2.9.11-8.el10               baseos    3.6 M
 crypto-policies            noarch  20251127-1.git27c2902.el10  baseos     98 k
 curl                       ppc64le 8.12.1-4.el10               baseos    222 k
 cyrus-sasl-lib             ppc64le 2.1.28-27.el10              baseos    118 k
 debugedit                  ppc64le 5.1-8.el10                  appstream  82 k
 dwz                        ppc64le 0.16-1.el10                 appstream 144 k
 ed                         ppc64le 1.20-5.el10                 baseos     86 k
 efi-srpm-macros            noarch  6-6.el10                    appstream  24 k
 elfutils                   ppc64le 0.194-1.el10                baseos    574 k
 elfutils-debuginfod-client ppc64le 0.194-1.el10                baseos     45 k
 elfutils-default-yama-scope
                            noarch  0.194-1.el10                baseos    8.3 k
 elfutils-libelf            ppc64le 0.194-1.el10                baseos    207 k
 elfutils-libs              ppc64le 0.194-1.el10                baseos    303 k
 file                       ppc64le 5.45-8.el10                 baseos     50 k
 file-libs                  ppc64le 5.45-8.el10                 baseos    775 k
 filesystem                 ppc64le 3.18-17.el10                baseos    4.8 M
 fonts-srpm-macros          noarch  1:2.0.5-18.el10             appstream  27 k
 forge-srpm-macros          noarch  0.4.0-6.el10                appstream  21 k
 fpc-srpm-macros            noarch  1.3-7.el10_1                epel      7.8 k
 gdb-minimal                ppc64le 16.3-2.el10                 appstream 4.5 M
 gdbm                       ppc64le 1:1.23-14.el10              baseos    157 k
 gdbm-libs                  ppc64le 1:1.23-14.el10              baseos     62 k
 ghc-srpm-macros            noarch  1.9.2-1.el10_0              epel      9.1 k
 glibc                      ppc64le 2.39-99.el10                baseos    2.9 M
 glibc-common               ppc64le 2.39-99.el10                baseos    340 k
 glibc-gconv-extra          ppc64le 2.39-99.el10                baseos    1.8 M
 gmp                        ppc64le 1:6.2.1-12.el10             baseos    303 k
 go-srpm-macros             noarch  3.8.0-1.el10                appstream  27 k
 jansson                    ppc64le 2.14-3.el10                 baseos     51 k
 json-c                     ppc64le 0.18-3.el10                 baseos     50 k
 kernel-srpm-macros         noarch  1.0-27.el10                 appstream 8.7 k
 keyutils-libs              ppc64le 1.6.3-5.el10                baseos     34 k
 krb5-libs                  ppc64le 1.21.3-8.el10               baseos    845 k
 libacl                     ppc64le 2.3.2-4.el10                baseos     28 k
 libarchive                 ppc64le 3.7.7-4.el10                baseos    475 k
 libattr                    ppc64le 2.5.2-5.el10                baseos     20 k
 libblkid                   ppc64le 2.40.2-13.el10              baseos    139 k
 libbrotli                  ppc64le 1.1.0-7.el10                baseos    383 k
 libcap                     ppc64le 2.69-7.el10                 baseos     96 k
 libcap-ng                  ppc64le 0.8.4-6.el10                baseos     34 k
 libcom_err                 ppc64le 1.47.1-5.el10               baseos     26 k
 libcurl                    ppc64le 8.12.1-4.el10               baseos    412 k
 libeconf                   ppc64le 0.6.2-4.el10                baseos     37 k
 libevent                   ppc64le 2.1.12-16.el10              baseos    275 k
 libfdisk                   ppc64le 2.40.2-13.el10              baseos    173 k
 libffi                     ppc64le 3.4.4-10.el10               baseos     38 k
 libgcc                     ppc64le 14.3.1-4.2.el10             baseos    107 k
 libgomp                    ppc64le 14.3.1-4.2.el10             baseos    382 k
 libidn2                    ppc64le 2.3.7-3.el10                baseos    120 k
 libmount                   ppc64le 2.40.2-13.el10              baseos    175 k
 libnghttp2                 ppc64le 1.64.0-2.el10               baseos     86 k
 libpkgconf                 ppc64le 2.1.0-3.el10                baseos     43 k
 libpsl                     ppc64le 0.21.5-6.el10               baseos     67 k
 libpwquality               ppc64le 1.4.5-12.el10               baseos    125 k
 librtas                    ppc64le 2.0.6-4.el10                baseos     82 k
 libselinux                 ppc64le 3.9-3.el10                  baseos    108 k
 libsemanage                ppc64le 3.9-2.el10                  baseos    134 k
 libsepol                   ppc64le 3.9-1.el10                  baseos    376 k
 libsmartcols               ppc64le 2.40.2-13.el10              baseos     89 k
 libssh                     ppc64le 0.11.1-3.el10               baseos    262 k
 libssh-config              noarch  0.11.1-3.el10               baseos    8.4 k
 libstdc++                  ppc64le 14.3.1-4.2.el10             baseos    1.0 M
 libtasn1                   ppc64le 4.20.0-1.el10               baseos     80 k
 libunistring               ppc64le 1.1-10.el10                 baseos    553 k
 libutempter                ppc64le 1.2.1-15.el10               baseos     28 k
 libuuid                    ppc64le 2.40.2-13.el10              baseos     30 k
 libverto                   ppc64le 0.3.2-10.el10               baseos     23 k
 libxcrypt                  ppc64le 4.4.36-10.el10              baseos    131 k
 libxml2                    ppc64le 2.12.5-9.el10               baseos    762 k
 libzstd                    ppc64le 1.5.5-9.el10                baseos    332 k
 lua-libs                   ppc64le 5.4.6-7.el10                baseos    148 k
 lua-srpm-macros            noarch  1-15.el10                   appstream 9.8 k
 lz4-libs                   ppc64le 1.9.4-8.el10                baseos     87 k
 mpfr                       ppc64le 4.2.1-6.el10                baseos    334 k
 ncurses-base               noarch  6.4-14.20240127.el10        baseos    100 k
 ncurses-libs               ppc64le 6.4-14.20240127.el10        baseos    380 k
 ocaml-srpm-macros          noarch  10-4.el10                   appstream  10 k
 openblas-srpm-macros       noarch  2-19.el10                   appstream 8.7 k
 openldap                   ppc64le 2.6.10-1.el10               baseos    266 k
 openssl-fips-provider      ppc64le 1:3.5.1-6.el10              baseos    788 k
 openssl-libs               ppc64le 1:3.5.1-6.el10              baseos    2.4 M
 p11-kit                    ppc64le 0.26.1-1.el10               baseos    553 k
 p11-kit-trust              ppc64le 0.26.1-1.el10               baseos    156 k
 package-notes-srpm-macros  noarch  0.5-13.el10                 appstream  10 k
 pam                        ppc64le 1.6.1-9.el10                baseos    620 k
 pam-libs                   ppc64le 1.6.1-9.el10                baseos     61 k
 pcre2                      ppc64le 10.44-1.el10.3              baseos    252 k
 pcre2-syntax               noarch  10.44-1.el10.3              baseos    151 k
 perl-srpm-macros           noarch  1-57.el10                   appstream 9.5 k
 pkgconf                    ppc64le 2.1.0-3.el10                baseos     45 k
 pkgconf-m4                 noarch  2.1.0-3.el10                baseos     15 k
 pkgconf-pkg-config         ppc64le 2.1.0-3.el10                baseos     11 k
 popt                       ppc64le 1.19-8.el10                 baseos     70 k
 publicsuffix-list-dafsa    noarch  20240107-5.el10             baseos     59 k
 pyproject-srpm-macros      noarch  1.18.5-1.el10               appstream  13 k
 python-srpm-macros         noarch  3.12-11.el10                appstream  22 k
 qt6-srpm-macros            noarch  6.10.1-1.el10               appstream 9.1 k
 readline                   ppc64le 8.2-11.el10                 baseos    229 k
 rpm                        ppc64le 4.19.1.1-21.el10            baseos    563 k
 rpm-build-libs             ppc64le 4.19.1.1-21.el10            baseos     98 k
 rpm-libs                   ppc64le 4.19.1.1-21.el10            baseos    348 k
 rpm-sequoia                ppc64le 1.9.0.3-1.el10              baseos    1.6 M
 rust-toolset-srpm-macros   noarch  1.92.0-1.el10               appstream  11 k
 setup                      noarch  2.14.5-7.el10               baseos    153 k
 sqlite-libs                ppc64le 3.46.1-5.el10               baseos    829 k
 systemd-libs               ppc64le 257-21.el10                 baseos    859 k
 util-linux-core            ppc64le 2.40.2-13.el10              baseos    566 k
 xz-libs                    ppc64le 1:5.6.2-4.el10              baseos    124 k
 zip                        ppc64le 3.0-45.el10                 baseos    277 k
 zlib-ng-compat             ppc64le 2.2.3-3.el10                baseos     77 k
 zstd                       ppc64le 1.5.5-9.el10                baseos    495 k

Transaction Summary
================================================================================
Install  148 Packages

Total download size: 64 M
Installed size: 239 M
Downloading Packages:
(1/148): alternatives-1.30-2.el10.ppc64le.rpm    28 kB/s |  44 kB     00:01    
(2/148): authselect-1.5.0-8.el10.ppc64le.rpm     78 kB/s | 145 kB     00:01    
(3/148): audit-libs-4.0.3-5.el10.ppc64le.rpm     75 kB/s | 144 kB     00:01    
(4/148): basesystem-11-22.el10.noarch.rpm        25 kB/s | 4.3 kB     00:00    
(5/148): authselect-libs-1.5.0-8.el10.ppc64le.r 426 kB/s | 225 kB     00:00    
(6/148): binutils-gold-2.41-60.el10.ppc64le.rpm 1.4 MB/s | 1.1 MB     00:00    
(7/148): binutils-2.41-60.el10.ppc64le.rpm      6.1 MB/s | 6.4 MB     00:01    
(8/148): bzip2-1.0.8-25.el10.ppc64le.rpm        230 kB/s |  55 kB     00:00    
(9/148): ca-certificates-2025.2.80_v9.0.305-102 4.7 MB/s | 1.1 MB     00:00    
(10/148): bzip2-libs-1.0.8-25.el10.ppc64le.rpm  193 kB/s |  46 kB     00:00    
(11/148): bash-5.2.26-6.el10.ppc64le.rpm        1.2 MB/s | 1.9 MB     00:01    
(12/148): centos-gpg-keys-10.0-19.el10.noarch.r 131 kB/s |  26 kB     00:00    
(13/148): centos-stream-release-10.0-19.el10.no 140 kB/s |  30 kB     00:00    
(14/148): centos-stream-repos-10.0-19.el10.noar  63 kB/s |  12 kB     00:00    
(15/148): coreutils-common-9.5-6.el10.ppc64le.r 7.0 MB/s | 2.1 MB     00:00    
(16/148): cpio-2.15-3.el10.ppc64le.rpm          1.4 MB/s | 299 kB     00:00    
(17/148): coreutils-9.5-6.el10.ppc64le.rpm      2.8 MB/s | 1.2 MB     00:00    
(18/148): cracklib-2.9.11-8.el10.ppc64le.rpm    494 kB/s |  98 kB     00:00    
(19/148): crypto-policies-20251127-1.git27c2902 458 kB/s |  98 kB     00:00    
(20/148): curl-8.12.1-4.el10.ppc64le.rpm        1.2 MB/s | 222 kB     00:00    
(21/148): cyrus-sasl-lib-2.1.28-27.el10.ppc64le 559 kB/s | 118 kB     00:00    
(22/148): diffutils-3.10-8.el10.ppc64le.rpm     2.1 MB/s | 419 kB     00:00    
(23/148): cracklib-dicts-2.9.11-8.el10.ppc64le. 6.5 MB/s | 3.6 MB     00:00    
(24/148): ed-1.20-5.el10.ppc64le.rpm            402 kB/s |  86 kB     00:00    
(25/148): elfutils-0.194-1.el10.ppc64le.rpm     2.3 MB/s | 574 kB     00:00    
(26/148): elfutils-debuginfod-client-0.194-1.el 202 kB/s |  45 kB     00:00    
(27/148): elfutils-default-yama-scope-0.194-1.e  43 kB/s | 8.3 kB     00:00    
(28/148): elfutils-libelf-0.194-1.el10.ppc64le. 1.0 MB/s | 207 kB     00:00    
(29/148): elfutils-libs-0.194-1.el10.ppc64le.rp 1.2 MB/s | 303 kB     00:00    
(30/148): file-5.45-8.el10.ppc64le.rpm          198 kB/s |  50 kB     00:00    
(31/148): file-libs-5.45-8.el10.ppc64le.rpm     3.4 MB/s | 775 kB     00:00    
(32/148): findutils-4.10.0-5.el10.ppc64le.rpm   2.3 MB/s | 567 kB     00:00    
(33/148): gawk-5.3.0-6.el10.ppc64le.rpm         4.8 MB/s | 1.1 MB     00:00    
(34/148): filesystem-3.18-17.el10.ppc64le.rpm    11 MB/s | 4.8 MB     00:00    
(35/148): gdbm-1.23-14.el10.ppc64le.rpm         810 kB/s | 157 kB     00:00    
(36/148): gdbm-libs-1.23-14.el10.ppc64le.rpm    329 kB/s |  62 kB     00:00    
(37/148): glibc-2.39-99.el10.ppc64le.rpm        9.5 MB/s | 2.9 MB     00:00    
(38/148): glibc-common-2.39-99.el10.ppc64le.rpm 1.5 MB/s | 340 kB     00:00    
(39/148): glibc-gconv-extra-2.39-99.el10.ppc64l 6.6 MB/s | 1.8 MB     00:00    
(40/148): glibc-minimal-langpack-2.39-99.el10.p 197 kB/s |  39 kB     00:00    
(41/148): gmp-6.2.1-12.el10.ppc64le.rpm         1.2 MB/s | 303 kB     00:00    
(42/148): grep-3.11-10.el10.ppc64le.rpm         1.5 MB/s | 310 kB     00:00    
(43/148): gzip-1.13-3.el10.ppc64le.rpm          865 kB/s | 173 kB     00:00    
(44/148): info-7.1-6.el10.ppc64le.rpm           1.0 MB/s | 201 kB     00:00    
(45/148): jansson-2.14-3.el10.ppc64le.rpm       258 kB/s |  51 kB     00:00    
(46/148): json-c-0.18-3.el10.ppc64le.rpm        225 kB/s |  50 kB     00:00    
(47/148): keyutils-libs-1.6.3-5.el10.ppc64le.rp 168 kB/s |  34 kB     00:00    
(48/148): krb5-libs-1.21.3-8.el10.ppc64le.rpm   3.0 MB/s | 845 kB     00:00    
(49/148): libacl-2.3.2-4.el10.ppc64le.rpm       137 kB/s |  28 kB     00:00    
(50/148): libarchive-3.7.7-4.el10.ppc64le.rpm   2.3 MB/s | 475 kB     00:00    
(51/148): libattr-2.5.2-5.el10.ppc64le.rpm       94 kB/s |  20 kB     00:00    
(52/148): libblkid-2.40.2-13.el10.ppc64le.rpm   678 kB/s | 139 kB     00:00    
(53/148): libbrotli-1.1.0-7.el10.ppc64le.rpm    1.6 MB/s | 383 kB     00:00    
(54/148): libcap-2.69-7.el10.ppc64le.rpm        504 kB/s |  96 kB     00:00    
(55/148): libcap-ng-0.8.4-6.el10.ppc64le.rpm    178 kB/s |  34 kB     00:00    
(56/148): libcom_err-1.47.1-5.el10.ppc64le.rpm  140 kB/s |  26 kB     00:00    
(57/148): libcurl-8.12.1-4.el10.ppc64le.rpm     1.7 MB/s | 412 kB     00:00    
(58/148): libeconf-0.6.2-4.el10.ppc64le.rpm     168 kB/s |  37 kB     00:00    
(59/148): libevent-2.1.12-16.el10.ppc64le.rpm   1.1 MB/s | 275 kB     00:00    
(60/148): libfdisk-2.40.2-13.el10.ppc64le.rpm   853 kB/s | 173 kB     00:00    
(61/148): libffi-3.4.4-10.el10.ppc64le.rpm      145 kB/s |  38 kB     00:00    
(62/148): libgcc-14.3.1-4.2.el10.ppc64le.rpm    550 kB/s | 107 kB     00:00    
(63/148): libgomp-14.3.1-4.2.el10.ppc64le.rpm   1.7 MB/s | 382 kB     00:00    
(64/148): libidn2-2.3.7-3.el10.ppc64le.rpm      593 kB/s | 120 kB     00:00    
(65/148): libmount-2.40.2-13.el10.ppc64le.rpm   829 kB/s | 175 kB     00:00    
(66/148): libnghttp2-1.64.0-2.el10.ppc64le.rpm  441 kB/s |  86 kB     00:00    
(67/148): libpkgconf-2.1.0-3.el10.ppc64le.rpm   214 kB/s |  43 kB     00:00    
(68/148): libpsl-0.21.5-6.el10.ppc64le.rpm      278 kB/s |  67 kB     00:00    
(69/148): libpwquality-1.4.5-12.el10.ppc64le.rp 663 kB/s | 125 kB     00:00    
(70/148): librtas-2.0.6-4.el10.ppc64le.rpm      425 kB/s |  82 kB     00:00    
(71/148): libselinux-3.9-3.el10.ppc64le.rpm     545 kB/s | 108 kB     00:00    
(72/148): libsemanage-3.9-2.el10.ppc64le.rpm    715 kB/s | 134 kB     00:00    
(73/148): libsmartcols-2.40.2-13.el10.ppc64le.r 474 kB/s |  89 kB     00:00    
(74/148): libsepol-3.9-1.el10.ppc64le.rpm       1.4 MB/s | 376 kB     00:00    
(75/148): libssh-0.11.1-3.el10.ppc64le.rpm      1.4 MB/s | 262 kB     00:00    
(76/148): libtasn1-4.20.0-1.el10.ppc64le.rpm    432 kB/s |  80 kB     00:00    
(77/148): libssh-config-0.11.1-3.el10.noarch.rp  40 kB/s | 8.4 kB     00:00    
(78/148): libstdc++-14.3.1-4.2.el10.ppc64le.rpm 4.4 MB/s | 1.0 MB     00:00    
(79/148): libunistring-1.1-10.el10.ppc64le.rpm  2.6 MB/s | 553 kB     00:00    
(80/148): libutempter-1.2.1-15.el10.ppc64le.rpm 139 kB/s |  28 kB     00:00    
(81/148): libuuid-2.40.2-13.el10.ppc64le.rpm    125 kB/s |  30 kB     00:00    
(82/148): libxcrypt-4.4.36-10.el10.ppc64le.rpm  632 kB/s | 131 kB     00:00    
(83/148): libverto-0.3.2-10.el10.ppc64le.rpm    100 kB/s |  23 kB     00:00    
(84/148): libxml2-2.12.5-9.el10.ppc64le.rpm     2.7 MB/s | 762 kB     00:00    
(85/148): lua-libs-5.4.6-7.el10.ppc64le.rpm     617 kB/s | 148 kB     00:00    
(86/148): libzstd-1.5.5-9.el10.ppc64le.rpm      1.1 MB/s | 332 kB     00:00    
(87/148): lz4-libs-1.9.4-8.el10.ppc64le.rpm     424 kB/s |  87 kB     00:00    
(88/148): ncurses-base-6.4-14.20240127.el10.noa 520 kB/s | 100 kB     00:00    
(89/148): mpfr-4.2.1-6.el10.ppc64le.rpm         1.4 MB/s | 334 kB     00:00    
(90/148): ncurses-libs-6.4-14.20240127.el10.ppc 1.6 MB/s | 380 kB     00:00    
(91/148): openldap-2.6.10-1.el10.ppc64le.rpm    1.3 MB/s | 266 kB     00:00    
(92/148): openssl-fips-provider-3.5.1-6.el10.pp 3.0 MB/s | 788 kB     00:00    
(93/148): p11-kit-0.26.1-1.el10.ppc64le.rpm     3.0 MB/s | 553 kB     00:00    
(94/148): p11-kit-trust-0.26.1-1.el10.ppc64le.r 773 kB/s | 156 kB     00:00    
(95/148): openssl-libs-3.5.1-6.el10.ppc64le.rpm 5.9 MB/s | 2.4 MB     00:00    
(96/148): pam-1.6.1-9.el10.ppc64le.rpm          2.8 MB/s | 620 kB     00:00    
(97/148): pcre2-10.44-1.el10.3.ppc64le.rpm      1.2 MB/s | 252 kB     00:00    
(98/148): pam-libs-1.6.1-9.el10.ppc64le.rpm     276 kB/s |  61 kB     00:00    
(99/148): pcre2-syntax-10.44-1.el10.3.noarch.rp 819 kB/s | 151 kB     00:00    
(100/148): pkgconf-m4-2.1.0-3.el10.noarch.rpm    84 kB/s |  15 kB     00:00    
(101/148): pkgconf-2.1.0-3.el10.ppc64le.rpm     230 kB/s |  45 kB     00:00    
(102/148): pkgconf-pkg-config-2.1.0-3.el10.ppc6  51 kB/s |  11 kB     00:00    
(103/148): popt-1.19-8.el10.ppc64le.rpm         347 kB/s |  70 kB     00:00    
(104/148): publicsuffix-list-dafsa-20240107-5.e 305 kB/s |  59 kB     00:00    
(105/148): readline-8.2-11.el10.ppc64le.rpm     1.2 MB/s | 229 kB     00:00    
(106/148): rpm-build-libs-4.19.1.1-21.el10.ppc6 499 kB/s |  98 kB     00:00    
(107/148): rpm-4.19.1.1-21.el10.ppc64le.rpm     2.4 MB/s | 563 kB     00:00    
(108/148): rpm-libs-4.19.1.1-21.el10.ppc64le.rp 1.6 MB/s | 348 kB     00:00    
(109/148): sed-4.9-3.el10.ppc64le.rpm           1.6 MB/s | 322 kB     00:00    
(110/148): rpm-sequoia-1.9.0.3-1.el10.ppc64le.r 6.3 MB/s | 1.6 MB     00:00    
(111/148): setup-2.14.5-7.el10.noarch.rpm       788 kB/s | 153 kB     00:00    
(112/148): shadow-utils-4.15.0-9.el10.ppc64le.r 5.7 MB/s | 1.4 MB     00:00    
(113/148): sqlite-libs-3.46.1-5.el10.ppc64le.rp 3.3 MB/s | 829 kB     00:00    
(114/148): systemd-libs-257-21.el10.ppc64le.rpm 3.7 MB/s | 859 kB     00:00    
(115/148): tar-1.35-10.el10.ppc64le.rpm         3.7 MB/s | 885 kB     00:00    
(116/148): unzip-6.0-69.el10.ppc64le.rpm        933 kB/s | 192 kB     00:00    
(117/148): util-linux-2.40.2-13.el10.ppc64le.rp 5.7 MB/s | 1.3 MB     00:00    
(118/148): util-linux-core-2.40.2-13.el10.ppc64 2.6 MB/s | 566 kB     00:00    
(119/148): which-2.21-44.el10.ppc64le.rpm       203 kB/s |  43 kB     00:00    
(120/148): xz-5.6.2-4.el10.ppc64le.rpm          2.2 MB/s | 484 kB     00:00    
(121/148): xz-libs-5.6.2-4.el10.ppc64le.rpm     604 kB/s | 124 kB     00:00    
(122/148): zip-3.0-45.el10.ppc64le.rpm          1.1 MB/s | 277 kB     00:00    
(123/148): zlib-ng-compat-2.2.3-3.el10.ppc64le. 361 kB/s |  77 kB     00:00    
(124/148): zstd-1.5.5-9.el10.ppc64le.rpm        2.0 MB/s | 495 kB     00:00    
(125/148): debugedit-5.1-8.el10.ppc64le.rpm     122 kB/s |  82 kB     00:00    
(126/148): efi-srpm-macros-6-6.el10.noarch.rpm   47 kB/s |  24 kB     00:00    
(127/148): fonts-srpm-macros-2.0.5-18.el10.noar 153 kB/s |  27 kB     00:00    
(128/148): dwz-0.16-1.el10.ppc64le.rpm          172 kB/s | 144 kB     00:00    
(129/148): forge-srpm-macros-0.4.0-6.el10.noarc 103 kB/s |  21 kB     00:00    
(130/148): go-srpm-macros-3.8.0-1.el10.noarch.r 124 kB/s |  27 kB     00:00    
(131/148): kernel-srpm-macros-1.0-27.el10.noarc  31 kB/s | 8.7 kB     00:00    
(132/148): lua-srpm-macros-1-15.el10.noarch.rpm  53 kB/s | 9.8 kB     00:00    
(133/148): ocaml-srpm-macros-10-4.el10.noarch.r  47 kB/s |  10 kB     00:00    
(134/148): openblas-srpm-macros-2-19.el10.noarc  46 kB/s | 8.7 kB     00:00    
(135/148): package-notes-srpm-macros-0.5-13.el1  52 kB/s |  10 kB     00:00    
(136/148): patch-2.7.6-26.el10.ppc64le.rpm      520 kB/s | 142 kB     00:00    
(137/148): perl-srpm-macros-1-57.el10.noarch.rp  46 kB/s | 9.5 kB     00:00    
(138/148): gdb-minimal-16.3-2.el10.ppc64le.rpm  4.5 MB/s | 4.5 MB     00:00    
(139/148): pyproject-srpm-macros-1.18.5-1.el10.  63 kB/s |  13 kB     00:00    
(140/148): qt6-srpm-macros-6.10.1-1.el10.noarch  62 kB/s | 9.1 kB     00:00    
(141/148): python-srpm-macros-3.12-11.el10.noar  90 kB/s |  22 kB     00:00    
(142/148): redhat-rpm-config-295-1.el10.noarch. 418 kB/s |  74 kB     00:00    
(143/148): rpm-build-4.19.1.1-21.el10.ppc64le.r 484 kB/s |  76 kB     00:00    
(144/148): rust-toolset-srpm-macros-1.92.0-1.el  52 kB/s |  11 kB     00:00    
[MIRROR] ansible-srpm-macros-1-16.1.el10_0.noarch.rpm: Curl error (28): Timeout was reached for https://dl.fedoraproject.org/pub/epel/10.2/Everything/ppc64le/Packages/a/ansible-srpm-macros-1-16.1.el10_0.noarch.rpm [Connection timed out after 30002 milliseconds]
[MIRROR] epel-rpm-macros-10-6.el10_2.noarch.rpm: Curl error (28): Timeout was reached for https://dl.fedoraproject.org/pub/epel/10.2/Everything/ppc64le/Packages/e/epel-rpm-macros-10-6.el10_2.noarch.rpm [Connection timed out after 30000 milliseconds]
[MIRROR] fpc-srpm-macros-1.3-7.el10_1.noarch.rpm: Curl error (28): Timeout was reached for https://dl.fedoraproject.org/pub/epel/10.2/Everything/ppc64le/Packages/f/fpc-srpm-macros-1.3-7.el10_1.noarch.rpm [Connection timed out after 30000 milliseconds]
(145/148): epel-rpm-macros-10-6.el10_2.noarch.r 279  B/s | 8.2 kB     00:30    
(146/148): fpc-srpm-macros-1.3-7.el10_1.noarch. 265  B/s | 7.8 kB     00:30    
(147/148): ansible-srpm-macros-1-16.1.el10_0.no 679  B/s |  20 kB     00:30    
(148/148): ghc-srpm-macros-1.9.2-1.el10_0.noarc 113 kB/s | 9.1 kB     00:00    
--------------------------------------------------------------------------------
Total                                           1.4 MB/s |  64 MB     00:44     
CentOS Stream 10 - BaseOS                       1.6 MB/s | 1.6 kB     00:00    
Key imported successfullyImporting GPG key 0x8483C65D:
 Userid     : "CentOS (CentOS Official Signing Key) <security@centos.org>"
 Fingerprint: 99DB 70FA E1D7 CE22 7FB6 4882 05B5 55B3 8483 C65D
 From       : /usr/share/distribution-gpg-keys/centos/RPM-GPG-KEY-CentOS-Official-SHA256

Extra Packages for Enterprise Linux 10 - ppc64l 1.6 MB/s | 1.6 kB     00:00    
Importing GPG key 0xE37ED158:
 Userid     : "Fedora (epel10) <epel@fedoraproject.org>"
 Fingerprint: 7D8D 15CB FC4E 6268 8591 FB26 33D9 8517 E37E D158
 From       : /usr/share/distribution-gpg-keys/epel/RPM-GPG-KEY-EPEL-10
Key imported successfully
Running transaction check
Transaction check succeeded.
Running transaction test
Transaction test succeeded.
Running transaction
  Running scriptlet: filesystem-3.18-17.el10.ppc64le                        1/1 
  Preparing        :                                                        1/1 
  Installing       : libgcc-14.3.1-4.2.el10.ppc64le                       1/148 
  Running scriptlet: libgcc-14.3.1-4.2.el10.ppc64le                       1/148 
  Installing       : ghc-srpm-macros-1.9.2-1.el10_0.noarch                2/148 
  Installing       : fpc-srpm-macros-1.3-7.el10_1.noarch                  3/148 
  Installing       : ansible-srpm-macros-1-16.1.el10_0.noarch             4/148 
  Installing       : rust-toolset-srpm-macros-1.92.0-1.el10.noarch        5/148 
  Installing       : qt6-srpm-macros-6.10.1-1.el10.noarch                 6/148 
  Installing       : perl-srpm-macros-1-57.el10.noarch                    7/148 
  Installing       : package-notes-srpm-macros-0.5-13.el10.noarch         8/148 
  Installing       : openblas-srpm-macros-2-19.el10.noarch                9/148 
  Installing       : ocaml-srpm-macros-10-4.el10.noarch                  10/148 
  Installing       : kernel-srpm-macros-1.0-27.el10.noarch               11/148 
  Installing       : publicsuffix-list-dafsa-20240107-5.el10.noarch      12/148 
  Installing       : pkgconf-m4-2.1.0-3.el10.noarch                      13/148 
  Installing       : pcre2-syntax-10.44-1.el10.3.noarch                  14/148 
  Installing       : ncurses-base-6.4-14.20240127.el10.noarch            15/148 
  Installing       : libssh-config-0.11.1-3.el10.noarch                  16/148 
  Installing       : coreutils-common-9.5-6.el10.ppc64le                 17/148 
  Installing       : centos-gpg-keys-10.0-19.el10.noarch                 18/148 
  Installing       : centos-stream-repos-10.0-19.el10.noarch             19/148 
  Installing       : centos-stream-release-10.0-19.el10.noarch           20/148 
  Installing       : setup-2.14.5-7.el10.noarch                          21/148 
warning: /etc/hosts created as /etc/hosts.rpmnew

  Running scriptlet: setup-2.14.5-7.el10.noarch                          21/148 
  Installing       : filesystem-3.18-17.el10.ppc64le                     22/148 
  Installing       : basesystem-11-22.el10.noarch                        23/148 
  Installing       : glibc-gconv-extra-2.39-99.el10.ppc64le              24/148 
  Running scriptlet: glibc-gconv-extra-2.39-99.el10.ppc64le              24/148 
  Installing       : glibc-minimal-langpack-2.39-99.el10.ppc64le         25/148 
  Installing       : glibc-common-2.39-99.el10.ppc64le                   26/148 
  Running scriptlet: glibc-2.39-99.el10.ppc64le                          27/148 
  Installing       : glibc-2.39-99.el10.ppc64le                          27/148 
  Running scriptlet: glibc-2.39-99.el10.ppc64le                          27/148 
  Installing       : ncurses-libs-6.4-14.20240127.el10.ppc64le           28/148 
  Installing       : bash-5.2.26-6.el10.ppc64le                          29/148 
  Running scriptlet: bash-5.2.26-6.el10.ppc64le                          29/148 
  Installing       : zlib-ng-compat-2.2.3-3.el10.ppc64le                 30/148 
  Installing       : bzip2-libs-1.0.8-25.el10.ppc64le                    31/148 
  Installing       : xz-libs-1:5.6.2-4.el10.ppc64le                      32/148 
  Installing       : readline-8.2-11.el10.ppc64le                        33/148 
  Installing       : libstdc++-14.3.1-4.2.el10.ppc64le                   34/148 
  Installing       : libuuid-2.40.2-13.el10.ppc64le                      35/148 
  Installing       : popt-1.19-8.el10.ppc64le                            36/148 
  Installing       : libblkid-2.40.2-13.el10.ppc64le                     37/148 
  Installing       : gmp-1:6.2.1-12.el10.ppc64le                         38/148 
  Installing       : libattr-2.5.2-5.el10.ppc64le                        39/148 
  Installing       : libacl-2.3.2-4.el10.ppc64le                         40/148 
  Installing       : libxcrypt-4.4.36-10.el10.ppc64le                    41/148 
  Installing       : libzstd-1.5.5-9.el10.ppc64le                        42/148 
  Installing       : elfutils-libelf-0.194-1.el10.ppc64le                43/148 
  Running scriptlet: crypto-policies-20251127-1.git27c2902.el10.noarc    44/148 
  Installing       : crypto-policies-20251127-1.git27c2902.el10.noarc    44/148 
  Running scriptlet: crypto-policies-20251127-1.git27c2902.el10.noarc    44/148 
  Installing       : gdbm-libs-1:1.23-14.el10.ppc64le                    45/148 
  Installing       : libeconf-0.6.2-4.el10.ppc64le                       46/148 
  Installing       : dwz-0.16-1.el10.ppc64le                             47/148 
  Installing       : mpfr-4.2.1-6.el10.ppc64le                           48/148 
  Installing       : gawk-5.3.0-6.el10.ppc64le                           49/148 
  Installing       : unzip-6.0-69.el10.ppc64le                           50/148 
  Installing       : file-libs-5.45-8.el10.ppc64le                       51/148 
  Installing       : file-5.45-8.el10.ppc64le                            52/148 
  Installing       : alternatives-1.30-2.el10.ppc64le                    53/148 
  Installing       : jansson-2.14-3.el10.ppc64le                         54/148 
  Installing       : libcap-ng-0.8.4-6.el10.ppc64le                      55/148 
  Installing       : audit-libs-4.0.3-5.el10.ppc64le                     56/148 
  Installing       : pam-libs-1.6.1-9.el10.ppc64le                       57/148 
  Installing       : libcap-2.69-7.el10.ppc64le                          58/148 
  Installing       : systemd-libs-257-21.el10.ppc64le                    59/148 
  Installing       : libffi-3.4.4-10.el10.ppc64le                        60/148 
  Installing       : libsepol-3.9-1.el10.ppc64le                         61/148 
  Installing       : libsmartcols-2.40.2-13.el10.ppc64le                 62/148 
  Installing       : libtasn1-4.20.0-1.el10.ppc64le                      63/148 
  Installing       : libunistring-1.1-10.el10.ppc64le                    64/148 
  Installing       : libidn2-2.3.7-3.el10.ppc64le                        65/148 
  Installing       : lua-libs-5.4.6-7.el10.ppc64le                       66/148 
  Installing       : lz4-libs-1.9.4-8.el10.ppc64le                       67/148 
  Installing       : pcre2-10.44-1.el10.3.ppc64le                        68/148 
  Installing       : libselinux-3.9-3.el10.ppc64le                       69/148 
  Installing       : sed-4.9-3.el10.ppc64le                              70/148 
  Installing       : findutils-1:4.10.0-5.el10.ppc64le                   71/148 
  Installing       : grep-3.11-10.el10.ppc64le                           72/148 
  Installing       : xz-1:5.6.2-4.el10.ppc64le                           73/148 
  Installing       : libmount-2.40.2-13.el10.ppc64le                     74/148 
  Installing       : util-linux-core-2.40.2-13.el10.ppc64le              75/148 
  Installing       : libsemanage-3.9-2.el10.ppc64le                      76/148 
  Installing       : shadow-utils-2:4.15.0-9.el10.ppc64le                77/148 
  Running scriptlet: libutempter-1.2.1-15.el10.ppc64le                   78/148 
  Installing       : libutempter-1.2.1-15.el10.ppc64le                   78/148 
  Installing       : tar-2:1.35-10.el10.ppc64le                          79/148 
  Installing       : zstd-1.5.5-9.el10.ppc64le                           80/148 
  Installing       : libpsl-0.21.5-6.el10.ppc64le                        81/148 
  Installing       : p11-kit-0.26.1-1.el10.ppc64le                       82/148 
  Installing       : p11-kit-trust-0.26.1-1.el10.ppc64le                 83/148 
  Running scriptlet: p11-kit-trust-0.26.1-1.el10.ppc64le                 83/148 
  Installing       : openssl-fips-provider-1:3.5.1-6.el10.ppc64le        84/148 
  Installing       : openssl-libs-1:3.5.1-6.el10.ppc64le                 85/148 
  Installing       : coreutils-9.5-6.el10.ppc64le                        86/148 
  Running scriptlet: ca-certificates-2025.2.80_v9.0.305-102.el10.noar    87/148 
  Installing       : ca-certificates-2025.2.80_v9.0.305-102.el10.noar    87/148 
  Running scriptlet: ca-certificates-2025.2.80_v9.0.305-102.el10.noar    87/148 
  Installing       : authselect-libs-1.5.0-8.el10.ppc64le                88/148 
  Installing       : gzip-1.13-3.el10.ppc64le                            89/148 
  Installing       : cracklib-2.9.11-8.el10.ppc64le                      90/148 
  Installing       : cracklib-dicts-2.9.11-8.el10.ppc64le                91/148 
  Installing       : libpwquality-1.4.5-12.el10.ppc64le                  92/148 
  Installing       : libevent-2.1.12-16.el10.ppc64le                     93/148 
  Installing       : rpm-sequoia-1.9.0.3-1.el10.ppc64le                  94/148 
  Installing       : zip-3.0-45.el10.ppc64le                             95/148 
  Installing       : cyrus-sasl-lib-2.1.28-27.el10.ppc64le               96/148 
  Installing       : openldap-2.6.10-1.el10.ppc64le                      97/148 
  Installing       : gdbm-1:1.23-14.el10.ppc64le                         98/148 
  Installing       : pam-1.6.1-9.el10.ppc64le                            99/148 
  Installing       : libfdisk-2.40.2-13.el10.ppc64le                    100/148 
  Installing       : libxml2-2.12.5-9.el10.ppc64le                      101/148 
  Installing       : libarchive-3.7.7-4.el10.ppc64le                    102/148 
  Installing       : bzip2-1.0.8-25.el10.ppc64le                        103/148 
  Installing       : sqlite-libs-3.46.1-5.el10.ppc64le                  104/148 
  Installing       : rpm-libs-4.19.1.1-21.el10.ppc64le                  105/148 
  Installing       : ed-1.20-5.el10.ppc64le                             106/148 
  Installing       : patch-2.7.6-26.el10.ppc64le                        107/148 
  Installing       : elfutils-default-yama-scope-0.194-1.el10.noarch    108/148 
  Running scriptlet: elfutils-default-yama-scope-0.194-1.el10.noarch    108/148 
  Installing       : cpio-2.15-3.el10.ppc64le                           109/148 
  Installing       : diffutils-3.10-8.el10.ppc64le                      110/148 
  Installing       : json-c-0.18-3.el10.ppc64le                         111/148 
  Installing       : keyutils-libs-1.6.3-5.el10.ppc64le                 112/148 
  Installing       : libbrotli-1.1.0-7.el10.ppc64le                     113/148 
  Installing       : libcom_err-1.47.1-5.el10.ppc64le                   114/148 
  Installing       : libgomp-14.3.1-4.2.el10.ppc64le                    115/148 
  Installing       : libnghttp2-1.64.0-2.el10.ppc64le                   116/148 
  Installing       : libpkgconf-2.1.0-3.el10.ppc64le                    117/148 
  Installing       : pkgconf-2.1.0-3.el10.ppc64le                       118/148 
  Installing       : pkgconf-pkg-config-2.1.0-3.el10.ppc64le            119/148 
  Installing       : librtas-2.0.6-4.el10.ppc64le                       120/148 
  Running scriptlet: librtas-2.0.6-4.el10.ppc64le                       120/148 
  Installing       : libverto-0.3.2-10.el10.ppc64le                     121/148 
  Installing       : krb5-libs-1.21.3-8.el10.ppc64le                    122/148 
  Installing       : libssh-0.11.1-3.el10.ppc64le                       123/148 
  Installing       : libcurl-8.12.1-4.el10.ppc64le                      124/148 
  Installing       : elfutils-libs-0.194-1.el10.ppc64le                 125/148 
  Installing       : elfutils-debuginfod-client-0.194-1.el10.ppc64le    126/148 
  Installing       : binutils-gold-2.41-60.el10.ppc64le                 127/148 
  Running scriptlet: binutils-gold-2.41-60.el10.ppc64le                 127/148 
  Installing       : binutils-2.41-60.el10.ppc64le                      128/148 
  Running scriptlet: binutils-2.41-60.el10.ppc64le                      128/148 
  Installing       : elfutils-0.194-1.el10.ppc64le                      129/148 
  Installing       : gdb-minimal-16.3-2.el10.ppc64le                    130/148 
  Installing       : debugedit-5.1-8.el10.ppc64le                       131/148 
  Installing       : rpm-build-libs-4.19.1.1-21.el10.ppc64le            132/148 
  Installing       : curl-8.12.1-4.el10.ppc64le                         133/148 
  Running scriptlet: rpm-4.19.1.1-21.el10.ppc64le                       134/148 
  Installing       : rpm-4.19.1.1-21.el10.ppc64le                       134/148 
  Installing       : efi-srpm-macros-6-6.el10.noarch                    135/148 
  Installing       : lua-srpm-macros-1-15.el10.noarch                   136/148 
  Installing       : fonts-srpm-macros-1:2.0.5-18.el10.noarch           137/148 
  Installing       : forge-srpm-macros-0.4.0-6.el10.noarch              138/148 
  Installing       : go-srpm-macros-3.8.0-1.el10.noarch                 139/148 
  Installing       : python-srpm-macros-3.12-11.el10.noarch             140/148 
  Installing       : redhat-rpm-config-295-1.el10.noarch                141/148 
  Installing       : rpm-build-4.19.1.1-21.el10.ppc64le                 142/148 
  Installing       : pyproject-srpm-macros-1.18.5-1.el10.noarch         143/148 
  Installing       : util-linux-2.40.2-13.el10.ppc64le                  144/148 
  Running scriptlet: util-linux-2.40.2-13.el10.ppc64le                  144/148 
  Installing       : authselect-1.5.0-8.el10.ppc64le                    145/148 
  Installing       : which-2.21-44.el10.ppc64le                         146/148 
  Installing       : info-7.1-6.el10.ppc64le                            147/148 
  Installing       : epel-rpm-macros-10-6.el10_2.noarch                 148/148 
  Running scriptlet: filesystem-3.18-17.el10.ppc64le                    148/148 
  Running scriptlet: ca-certificates-2025.2.80_v9.0.305-102.el10.noar   148/148 
  Running scriptlet: authselect-libs-1.5.0-8.el10.ppc64le               148/148 
  Running scriptlet: rpm-4.19.1.1-21.el10.ppc64le                       148/148 
  Running scriptlet: epel-rpm-macros-10-6.el10_2.noarch                 148/148 

Installed:
  alternatives-1.30-2.el10.ppc64le                                              
  ansible-srpm-macros-1-16.1.el10_0.noarch                                      
  audit-libs-4.0.3-5.el10.ppc64le                                               
  authselect-1.5.0-8.el10.ppc64le                                               
  authselect-libs-1.5.0-8.el10.ppc64le                                          
  basesystem-11-22.el10.noarch                                                  
  bash-5.2.26-6.el10.ppc64le                                                    
  binutils-2.41-60.el10.ppc64le                                                 
  binutils-gold-2.41-60.el10.ppc64le                                            
  bzip2-1.0.8-25.el10.ppc64le                                                   
  bzip2-libs-1.0.8-25.el10.ppc64le                                              
  ca-certificates-2025.2.80_v9.0.305-102.el10.noarch                            
  centos-gpg-keys-10.0-19.el10.noarch                                           
  centos-stream-release-10.0-19.el10.noarch                                     
  centos-stream-repos-10.0-19.el10.noarch                                       
  coreutils-9.5-6.el10.ppc64le                                                  
  coreutils-common-9.5-6.el10.ppc64le                                           
  cpio-2.15-3.el10.ppc64le                                                      
  cracklib-2.9.11-8.el10.ppc64le                                                
  cracklib-dicts-2.9.11-8.el10.ppc64le                                          
  crypto-policies-20251127-1.git27c2902.el10.noarch                             
  curl-8.12.1-4.el10.ppc64le                                                    
  cyrus-sasl-lib-2.1.28-27.el10.ppc64le                                         
  debugedit-5.1-8.el10.ppc64le                                                  
  diffutils-3.10-8.el10.ppc64le                                                 
  dwz-0.16-1.el10.ppc64le                                                       
  ed-1.20-5.el10.ppc64le                                                        
  efi-srpm-macros-6-6.el10.noarch                                               
  elfutils-0.194-1.el10.ppc64le                                                 
  elfutils-debuginfod-client-0.194-1.el10.ppc64le                               
  elfutils-default-yama-scope-0.194-1.el10.noarch                               
  elfutils-libelf-0.194-1.el10.ppc64le                                          
  elfutils-libs-0.194-1.el10.ppc64le                                            
  epel-rpm-macros-10-6.el10_2.noarch                                            
  file-5.45-8.el10.ppc64le                                                      
  file-libs-5.45-8.el10.ppc64le                                                 
  filesystem-3.18-17.el10.ppc64le                                               
  findutils-1:4.10.0-5.el10.ppc64le                                             
  fonts-srpm-macros-1:2.0.5-18.el10.noarch                                      
  forge-srpm-macros-0.4.0-6.el10.noarch                                         
  fpc-srpm-macros-1.3-7.el10_1.noarch                                           
  gawk-5.3.0-6.el10.ppc64le                                                     
  gdb-minimal-16.3-2.el10.ppc64le                                               
  gdbm-1:1.23-14.el10.ppc64le                                                   
  gdbm-libs-1:1.23-14.el10.ppc64le                                              
  ghc-srpm-macros-1.9.2-1.el10_0.noarch                                         
  glibc-2.39-99.el10.ppc64le                                                    
  glibc-common-2.39-99.el10.ppc64le                                             
  glibc-gconv-extra-2.39-99.el10.ppc64le                                        
  glibc-minimal-langpack-2.39-99.el10.ppc64le                                   
  gmp-1:6.2.1-12.el10.ppc64le                                                   
  go-srpm-macros-3.8.0-1.el10.noarch                                            
  grep-3.11-10.el10.ppc64le                                                     
  gzip-1.13-3.el10.ppc64le                                                      
  info-7.1-6.el10.ppc64le                                                       
  jansson-2.14-3.el10.ppc64le                                                   
  json-c-0.18-3.el10.ppc64le                                                    
  kernel-srpm-macros-1.0-27.el10.noarch                                         
  keyutils-libs-1.6.3-5.el10.ppc64le                                            
  krb5-libs-1.21.3-8.el10.ppc64le                                               
  libacl-2.3.2-4.el10.ppc64le                                                   
  libarchive-3.7.7-4.el10.ppc64le                                               
  libattr-2.5.2-5.el10.ppc64le                                                  
  libblkid-2.40.2-13.el10.ppc64le                                               
  libbrotli-1.1.0-7.el10.ppc64le                                                
  libcap-2.69-7.el10.ppc64le                                                    
  libcap-ng-0.8.4-6.el10.ppc64le                                                
  libcom_err-1.47.1-5.el10.ppc64le                                              
  libcurl-8.12.1-4.el10.ppc64le                                                 
  libeconf-0.6.2-4.el10.ppc64le                                                 
  libevent-2.1.12-16.el10.ppc64le                                               
  libfdisk-2.40.2-13.el10.ppc64le                                               
  libffi-3.4.4-10.el10.ppc64le                                                  
  libgcc-14.3.1-4.2.el10.ppc64le                                                
  libgomp-14.3.1-4.2.el10.ppc64le                                               
  libidn2-2.3.7-3.el10.ppc64le                                                  
  libmount-2.40.2-13.el10.ppc64le                                               
  libnghttp2-1.64.0-2.el10.ppc64le                                              
  libpkgconf-2.1.0-3.el10.ppc64le                                               
  libpsl-0.21.5-6.el10.ppc64le                                                  
  libpwquality-1.4.5-12.el10.ppc64le                                            
  librtas-2.0.6-4.el10.ppc64le                                                  
  libselinux-3.9-3.el10.ppc64le                                                 
  libsemanage-3.9-2.el10.ppc64le                                                
  libsepol-3.9-1.el10.ppc64le                                                   
  libsmartcols-2.40.2-13.el10.ppc64le                                           
  libssh-0.11.1-3.el10.ppc64le                                                  
  libssh-config-0.11.1-3.el10.noarch                                            
  libstdc++-14.3.1-4.2.el10.ppc64le                                             
  libtasn1-4.20.0-1.el10.ppc64le                                                
  libunistring-1.1-10.el10.ppc64le                                              
  libutempter-1.2.1-15.el10.ppc64le                                             
  libuuid-2.40.2-13.el10.ppc64le                                                
  libverto-0.3.2-10.el10.ppc64le                                                
  libxcrypt-4.4.36-10.el10.ppc64le                                              
  libxml2-2.12.5-9.el10.ppc64le                                                 
  libzstd-1.5.5-9.el10.ppc64le                                                  
  lua-libs-5.4.6-7.el10.ppc64le                                                 
  lua-srpm-macros-1-15.el10.noarch                                              
  lz4-libs-1.9.4-8.el10.ppc64le                                                 
  mpfr-4.2.1-6.el10.ppc64le                                                     
  ncurses-base-6.4-14.20240127.el10.noarch                                      
  ncurses-libs-6.4-14.20240127.el10.ppc64le                                     
  ocaml-srpm-macros-10-4.el10.noarch                                            
  openblas-srpm-macros-2-19.el10.noarch                                         
  openldap-2.6.10-1.el10.ppc64le                                                
  openssl-fips-provider-1:3.5.1-6.el10.ppc64le                                  
  openssl-libs-1:3.5.1-6.el10.ppc64le                                           
  p11-kit-0.26.1-1.el10.ppc64le                                                 
  p11-kit-trust-0.26.1-1.el10.ppc64le                                           
  package-notes-srpm-macros-0.5-13.el10.noarch                                  
  pam-1.6.1-9.el10.ppc64le                                                      
  pam-libs-1.6.1-9.el10.ppc64le                                                 
  patch-2.7.6-26.el10.ppc64le                                                   
  pcre2-10.44-1.el10.3.ppc64le                                                  
  pcre2-syntax-10.44-1.el10.3.noarch                                            
  perl-srpm-macros-1-57.el10.noarch                                             
  pkgconf-2.1.0-3.el10.ppc64le                                                  
  pkgconf-m4-2.1.0-3.el10.noarch                                                
  pkgconf-pkg-config-2.1.0-3.el10.ppc64le                                       
  popt-1.19-8.el10.ppc64le                                                      
  publicsuffix-list-dafsa-20240107-5.el10.noarch                                
  pyproject-srpm-macros-1.18.5-1.el10.noarch                                    
  python-srpm-macros-3.12-11.el10.noarch                                        
  qt6-srpm-macros-6.10.1-1.el10.noarch                                          
  readline-8.2-11.el10.ppc64le                                                  
  redhat-rpm-config-295-1.el10.noarch                                           
  rpm-4.19.1.1-21.el10.ppc64le                                                  
  rpm-build-4.19.1.1-21.el10.ppc64le                                            
  rpm-build-libs-4.19.1.1-21.el10.ppc64le                                       
  rpm-libs-4.19.1.1-21.el10.ppc64le                                             
  rpm-sequoia-1.9.0.3-1.el10.ppc64le                                            
  rust-toolset-srpm-macros-1.92.0-1.el10.noarch                                 
  sed-4.9-3.el10.ppc64le                                                        
  setup-2.14.5-7.el10.noarch                                                    
  shadow-utils-2:4.15.0-9.el10.ppc64le                                          
  sqlite-libs-3.46.1-5.el10.ppc64le                                             
  systemd-libs-257-21.el10.ppc64le                                              
  tar-2:1.35-10.el10.ppc64le                                                    
  unzip-6.0-69.el10.ppc64le                                                     
  util-linux-2.40.2-13.el10.ppc64le                                             
  util-linux-core-2.40.2-13.el10.ppc64le                                        
  which-2.21-44.el10.ppc64le                                                    
  xz-1:5.6.2-4.el10.ppc64le                                                     
  xz-libs-1:5.6.2-4.el10.ppc64le                                                
  zip-3.0-45.el10.ppc64le                                                       
  zlib-ng-compat-2.2.3-3.el10.ppc64le                                           
  zstd-1.5.5-9.el10.ppc64le                                                     

Complete!
Finish: installing minimal buildroot with dnf
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: alternatives-1.30-2.el10.ppc64le
ansible-srpm-macros-1-16.1.el10_0.noarch
audit-libs-4.0.3-5.el10.ppc64le
authselect-1.5.0-8.el10.ppc64le
authselect-libs-1.5.0-8.el10.ppc64le
basesystem-11-22.el10.noarch
bash-5.2.26-6.el10.ppc64le
binutils-2.41-60.el10.ppc64le
binutils-gold-2.41-60.el10.ppc64le
bzip2-1.0.8-25.el10.ppc64le
bzip2-libs-1.0.8-25.el10.ppc64le
ca-certificates-2025.2.80_v9.0.305-102.el10.noarch
centos-gpg-keys-10.0-19.el10.noarch
centos-stream-release-10.0-19.el10.noarch
centos-stream-repos-10.0-19.el10.noarch
coreutils-9.5-6.el10.ppc64le
coreutils-common-9.5-6.el10.ppc64le
cpio-2.15-3.el10.ppc64le
cracklib-2.9.11-8.el10.ppc64le
cracklib-dicts-2.9.11-8.el10.ppc64le
crypto-policies-20251127-1.git27c2902.el10.noarch
curl-8.12.1-4.el10.ppc64le
cyrus-sasl-lib-2.1.28-27.el10.ppc64le
debugedit-5.1-8.el10.ppc64le
diffutils-3.10-8.el10.ppc64le
dwz-0.16-1.el10.ppc64le
ed-1.20-5.el10.ppc64le
efi-srpm-macros-6-6.el10.noarch
elfutils-0.194-1.el10.ppc64le
elfutils-debuginfod-client-0.194-1.el10.ppc64le
elfutils-default-yama-scope-0.194-1.el10.noarch
elfutils-libelf-0.194-1.el10.ppc64le
elfutils-libs-0.194-1.el10.ppc64le
epel-rpm-macros-10-6.el10_2.noarch
file-5.45-8.el10.ppc64le
file-libs-5.45-8.el10.ppc64le
filesystem-3.18-17.el10.ppc64le
findutils-4.10.0-5.el10.ppc64le
fonts-srpm-macros-2.0.5-18.el10.noarch
forge-srpm-macros-0.4.0-6.el10.noarch
fpc-srpm-macros-1.3-7.el10_1.noarch
gawk-5.3.0-6.el10.ppc64le
gdb-minimal-16.3-2.el10.ppc64le
gdbm-1.23-14.el10.ppc64le
gdbm-libs-1.23-14.el10.ppc64le
ghc-srpm-macros-1.9.2-1.el10_0.noarch
glibc-2.39-99.el10.ppc64le
glibc-common-2.39-99.el10.ppc64le
glibc-gconv-extra-2.39-99.el10.ppc64le
glibc-minimal-langpack-2.39-99.el10.ppc64le
gmp-6.2.1-12.el10.ppc64le
go-srpm-macros-3.8.0-1.el10.noarch
gpg-pubkey-8483c65d-5ccc5b19
gpg-pubkey-e37ed158-65785fa9
grep-3.11-10.el10.ppc64le
gzip-1.13-3.el10.ppc64le
info-7.1-6.el10.ppc64le
jansson-2.14-3.el10.ppc64le
json-c-0.18-3.el10.ppc64le
kernel-srpm-macros-1.0-27.el10.noarch
keyutils-libs-1.6.3-5.el10.ppc64le
krb5-libs-1.21.3-8.el10.ppc64le
libacl-2.3.2-4.el10.ppc64le
libarchive-3.7.7-4.el10.ppc64le
libattr-2.5.2-5.el10.ppc64le
libblkid-2.40.2-13.el10.ppc64le
libbrotli-1.1.0-7.el10.ppc64le
libcap-2.69-7.el10.ppc64le
libcap-ng-0.8.4-6.el10.ppc64le
libcom_err-1.47.1-5.el10.ppc64le
libcurl-8.12.1-4.el10.ppc64le
libeconf-0.6.2-4.el10.ppc64le
libevent-2.1.12-16.el10.ppc64le
libfdisk-2.40.2-13.el10.ppc64le
libffi-3.4.4-10.el10.ppc64le
libgcc-14.3.1-4.2.el10.ppc64le
libgomp-14.3.1-4.2.el10.ppc64le
libidn2-2.3.7-3.el10.ppc64le
libmount-2.40.2-13.el10.ppc64le
libnghttp2-1.64.0-2.el10.ppc64le
libpkgconf-2.1.0-3.el10.ppc64le
libpsl-0.21.5-6.el10.ppc64le
libpwquality-1.4.5-12.el10.ppc64le
librtas-2.0.6-4.el10.ppc64le
libselinux-3.9-3.el10.ppc64le
libsemanage-3.9-2.el10.ppc64le
libsepol-3.9-1.el10.ppc64le
libsmartcols-2.40.2-13.el10.ppc64le
libssh-0.11.1-3.el10.ppc64le
libssh-config-0.11.1-3.el10.noarch
libstdc++-14.3.1-4.2.el10.ppc64le
libtasn1-4.20.0-1.el10.ppc64le
libunistring-1.1-10.el10.ppc64le
libutempter-1.2.1-15.el10.ppc64le
libuuid-2.40.2-13.el10.ppc64le
libverto-0.3.2-10.el10.ppc64le
libxcrypt-4.4.36-10.el10.ppc64le
libxml2-2.12.5-9.el10.ppc64le
libzstd-1.5.5-9.el10.ppc64le
lua-libs-5.4.6-7.el10.ppc64le
lua-srpm-macros-1-15.el10.noarch
lz4-libs-1.9.4-8.el10.ppc64le
mpfr-4.2.1-6.el10.ppc64le
ncurses-base-6.4-14.20240127.el10.noarch
ncurses-libs-6.4-14.20240127.el10.ppc64le
ocaml-srpm-macros-10-4.el10.noarch
openblas-srpm-macros-2-19.el10.noarch
openldap-2.6.10-1.el10.ppc64le
openssl-fips-provider-3.5.1-6.el10.ppc64le
openssl-libs-3.5.1-6.el10.ppc64le
p11-kit-0.26.1-1.el10.ppc64le
p11-kit-trust-0.26.1-1.el10.ppc64le
package-notes-srpm-macros-0.5-13.el10.noarch
pam-1.6.1-9.el10.ppc64le
pam-libs-1.6.1-9.el10.ppc64le
patch-2.7.6-26.el10.ppc64le
pcre2-10.44-1.el10.3.ppc64le
pcre2-syntax-10.44-1.el10.3.noarch
perl-srpm-macros-1-57.el10.noarch
pkgconf-2.1.0-3.el10.ppc64le
pkgconf-m4-2.1.0-3.el10.noarch
pkgconf-pkg-config-2.1.0-3.el10.ppc64le
popt-1.19-8.el10.ppc64le
publicsuffix-list-dafsa-20240107-5.el10.noarch
pyproject-srpm-macros-1.18.5-1.el10.noarch
python-srpm-macros-3.12-11.el10.noarch
qt6-srpm-macros-6.10.1-1.el10.noarch
readline-8.2-11.el10.ppc64le
redhat-rpm-config-295-1.el10.noarch
rpm-4.19.1.1-21.el10.ppc64le
rpm-build-4.19.1.1-21.el10.ppc64le
rpm-build-libs-4.19.1.1-21.el10.ppc64le
rpm-libs-4.19.1.1-21.el10.ppc64le
rpm-sequoia-1.9.0.3-1.el10.ppc64le
rust-toolset-srpm-macros-1.92.0-1.el10.noarch
sed-4.9-3.el10.ppc64le
setup-2.14.5-7.el10.noarch
shadow-utils-4.15.0-9.el10.ppc64le
sqlite-libs-3.46.1-5.el10.ppc64le
systemd-libs-257-21.el10.ppc64le
tar-1.35-10.el10.ppc64le
unzip-6.0-69.el10.ppc64le
util-linux-2.40.2-13.el10.ppc64le
util-linux-core-2.40.2-13.el10.ppc64le
which-2.21-44.el10.ppc64le
xz-5.6.2-4.el10.ppc64le
xz-libs-5.6.2-4.el10.ppc64le
zip-3.0-45.el10.ppc64le
zlib-ng-compat-2.2.3-3.el10.ppc64le
zstd-1.5.5-9.el10.ppc64le
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.el10.src.rpm
Finish: rpmbuild -bs
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/centos-stream+epel-10-ppc64le-1769502186.073250/root/var/log/dnf.rpm.log
/var/lib/mock/centos-stream+epel-10-ppc64le-1769502186.073250/root/var/log/dnf.librepo.log
/var/lib/mock/centos-stream+epel-10-ppc64le-1769502186.073250/root/var/log/dnf.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
Finish: buildsrpm
INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-biuogqtd/bcftools/bcftools.spec) Config(child) 4 minutes 50 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.el10.src.rpm)  Config(centos-stream+epel-10-ppc64le)
Start(bootstrap): chroot init
INFO: mounting tmpfs at /var/lib/mock/centos-stream+epel-10-ppc64le-bootstrap-1769502186.073250/root.
INFO: reusing tmpfs at /var/lib/mock/centos-stream+epel-10-ppc64le-bootstrap-1769502186.073250/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/centos-stream+epel-10-ppc64le-1769502186.073250/root.
INFO: calling preinit hooks
INFO: enabled root cache
Start: unpacking root cache
Finish: unpacking root cache
INFO: enabled package manager cache
Start: cleaning package manager metadata
Finish: cleaning package manager metadata
INFO: enabled HW Info plugin
INFO: Buildroot is handled by package management downloaded with a bootstrap image:
  rpm-4.19.1.1-21.el10.ppc64le
  rpm-sequoia-1.9.0.3-1.el10.ppc64le
  python3-dnf-4.20.0-19.el10.noarch
  python3-dnf-plugins-core-4.7.0-10.el10.noarch
  yum-4.20.0-19.el10.noarch
Finish: chroot init
Start: build phase for bcftools-1.23-1.el10.src.rpm
Start: build setup for bcftools-1.23-1.el10.src.rpm
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.el10.src.rpm
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Copr repository                                 215  B/s | 1.5 kB     00:07    
Copr repository                                 1.0 kB/s | 3.5 kB     00:03    
CentOS Stream 10 - BaseOS                       504 kB/s |  22 kB     00:00    
CentOS Stream 10 - AppStream                    585 kB/s |  23 kB     00:00    
CentOS Stream 10 - CRB                          617 kB/s |  21 kB     00:00    
CentOS Stream 10 - Extras packages              638 kB/s |  28 kB     00:00    
Extra Packages for Enterprise Linux 10 - ppc64l 923 kB/s |  30 kB     00:00    
Extra Packages for Enterprise Linux 10 - ppc64l  34 kB/s | 6.1 MB     03:01    
Dependencies resolved.
================================================================================
 Package                   Arch      Version                  Repository   Size
================================================================================
Installing:
 autoconf                  noarch    2.71-13.el10             appstream   736 k
 automake                  noarch    1.16.5-20.el10           appstream   702 k
 gcc                       ppc64le   14.3.1-4.2.el10          appstream    33 M
 gsl-devel                 ppc64le   2.7.1-11.el10_0          epel        610 k
 htslib-devel              ppc64le   1.23-1.el10              copr_base   107 k
 htslib-tools              ppc64le   1.23-1.el10              copr_base   806 k
 make                      ppc64le   1:4.4.1-9.el10           baseos      600 k
 perl-ExtUtils-Embed       noarch    1.35-514.el10            appstream    18 k
 perl-File-Temp            noarch    1:0.231.100-512.el10     baseos       60 k
 perl-FindBin              noarch    1.54-514.el10            appstream    15 k
 perl-Getopt-Long          noarch    1:2.58-3.el10            baseos       65 k
 perl-interpreter          ppc64le   4:5.40.2-514.el10        appstream    73 k
 zlib-ng-compat-devel      ppc64le   2.2.3-3.el10             appstream    36 k
Installing dependencies:
 annobin-docs              noarch    13.02-2.el10             appstream    87 k
 annobin-plugin-gcc        ppc64le   13.02-2.el10             appstream   998 k
 cmake-filesystem          ppc64le   3.31.8-1.el10            appstream    21 k
 cpp                       ppc64le   14.3.1-4.2.el10          appstream    11 M
 emacs-filesystem          noarch    1:29.4-12.el10           appstream    10 k
 expat                     ppc64le   2.7.3-1.el10             baseos      124 k
 gcc-plugin-annobin        ppc64le   14.3.1-4.2.el10          appstream    71 k
 glibc-devel               ppc64le   2.39-99.el10             appstream   599 k
 groff-base                ppc64le   1.23.0-10.el10           baseos      1.1 M
 gsl                       ppc64le   2.7.1-11.el10_0          epel        1.1 M
 htslib                    ppc64le   1.23-1.el10              copr_base   634 k
 kernel-headers            ppc64le   6.12.0-191.el10          appstream   3.1 M
 libasan                   ppc64le   14.3.1-4.2.el10          appstream   540 k
 libatomic                 ppc64le   14.3.1-4.2.el10          baseos       56 k
 libmpc                    ppc64le   1.3.1-7.el10             appstream    77 k
 libubsan                  ppc64le   14.3.1-4.2.el10          appstream   262 k
 libxcrypt-devel           ppc64le   4.4.36-10.el10           appstream    30 k
 m4                        ppc64le   1.4.19-11.el10           appstream   320 k
 mpdecimal                 ppc64le   2.5.1-12.el10            baseos      105 k
 ncurses                   ppc64le   6.4-14.20240127.el10     baseos      431 k
 perl-AutoLoader           noarch    5.74-514.el10            appstream    22 k
 perl-AutoSplit            noarch    5.74-514.el10            appstream    22 k
 perl-B                    ppc64le   1.89-514.el10            appstream   181 k
 perl-Benchmark            noarch    1.25-514.el10            appstream    27 k
 perl-Carp                 noarch    1.54-511.el10            baseos       30 k
 perl-Class-Struct         noarch    0.68-514.el10            appstream    23 k
 perl-Data-Dumper          ppc64le   2.189-512.el10           baseos       58 k
 perl-Devel-PPPort         ppc64le   3.72-512.el10            appstream   222 k
 perl-Digest               noarch    1.20-511.el10            baseos       26 k
 perl-Digest-MD5           ppc64le   2.59-6.el10              baseos       37 k
 perl-DynaLoader           ppc64le   1.56-514.el10            appstream    27 k
 perl-Encode               ppc64le   4:3.21-511.el10          baseos      1.1 M
 perl-Errno                ppc64le   1.38-514.el10            appstream    16 k
 perl-Exporter             noarch    5.78-511.el10            baseos       32 k
 perl-ExtUtils-Command     noarch    2:7.70-513.el10          appstream    15 k
 perl-ExtUtils-Constant    noarch    0.25-514.el10            appstream    44 k
 perl-ExtUtils-Install     noarch    2.22-511.el10            appstream    44 k
 perl-ExtUtils-MakeMaker   noarch    2:7.70-513.el10          appstream   293 k
 perl-ExtUtils-Manifest    noarch    1:1.75-511.el10          appstream    35 k
 perl-ExtUtils-ParseXS     noarch    1:3.51-512.el10          appstream   186 k
 perl-Fcntl                ppc64le   1.18-514.el10            appstream    31 k
 perl-File-Basename        noarch    2.86-514.el10            appstream    18 k
 perl-File-Compare         noarch    1.100.800-514.el10       appstream    14 k
 perl-File-Copy            noarch    2.41-514.el10            appstream    21 k
 perl-File-Find            noarch    1.44-514.el10            appstream    26 k
 perl-File-Path            noarch    2.18-512.el10            appstream    35 k
 perl-File-stat            noarch    1.14-514.el10            appstream    18 k
 perl-FileHandle           noarch    2.05-514.el10            appstream    16 k
 perl-Getopt-Std           noarch    1.14-514.el10            appstream    16 k
 perl-HTTP-Tiny            noarch    0.088-512.el10           baseos       57 k
 perl-IO                   ppc64le   1.55-514.el10            appstream    81 k
 perl-IO-Socket-IP         noarch    0.42-512.el10            baseos       43 k
 perl-IO-Socket-SSL        noarch    2.085-3.el10             baseos      227 k
 perl-IPC-Open3            noarch    1.22-514.el10            appstream    23 k
 perl-MIME-Base64          ppc64le   3.16-511.el10            baseos       32 k
 perl-Mozilla-CA           noarch    20231213-5.el10          baseos       15 k
 perl-Net-SSLeay           ppc64le   1.94-8.el10              appstream   394 k
 perl-POSIX                ppc64le   2.20-514.el10            appstream    99 k
 perl-PathTools            ppc64le   3.91-512.el10            baseos       85 k
 perl-Pod-Escapes          noarch    1:1.07-511.el10          baseos       21 k
 perl-Pod-Perldoc          noarch    3.28.01-512.el10         baseos       84 k
 perl-Pod-Simple           noarch    1:3.45-511.el10          baseos      218 k
 perl-Pod-Usage            noarch    4:2.03-511.el10          baseos       41 k
 perl-Scalar-List-Utils    ppc64le   5:1.63-511.el10          baseos       77 k
 perl-SelectSaver          noarch    1.02-514.el10            appstream    12 k
 perl-Socket               ppc64le   4:2.038-511.el10         baseos       56 k
 perl-Storable             ppc64le   1:3.32-511.el10          baseos      103 k
 perl-Symbol               noarch    1.09-514.el10            appstream    15 k
 perl-Term-ANSIColor       noarch    5.01-512.el10            baseos       49 k
 perl-Term-Cap             noarch    1.18-511.el10            baseos       23 k
 perl-Test-Harness         noarch    1:3.48-512.el10          appstream   284 k
 perl-Text-ParseWords      noarch    3.31-511.el10            baseos       17 k
 perl-Text-Tabs+Wrap       noarch    2024.001-511.el10        baseos       23 k
 perl-Thread-Queue         noarch    3.14-511.el10            appstream    22 k
 perl-Time-Local           noarch    2:1.350-511.el10         baseos       35 k
 perl-URI                  noarch    5.27-3.el10              baseos      134 k
 perl-base                 noarch    2.27-514.el10            appstream    17 k
 perl-constant             noarch    1.33-512.el10            baseos       24 k
 perl-devel                ppc64le   4:5.40.2-514.el10        appstream   768 k
 perl-if                   noarch    0.61.000-514.el10        appstream    15 k
 perl-lib                  ppc64le   0.65-514.el10            appstream    16 k
 perl-libnet               noarch    3.15-512.el10            baseos      127 k
 perl-libs                 ppc64le   4:5.40.2-514.el10        appstream   2.5 M
 perl-locale               noarch    1.12-514.el10            appstream    14 k
 perl-mro                  ppc64le   1.29-514.el10            appstream    31 k
 perl-overload             noarch    1.37-514.el10            appstream    46 k
 perl-overloading          noarch    0.02-514.el10            appstream    14 k
 perl-parent               noarch    1:0.241-512.el10         baseos       16 k
 perl-podlators            noarch    1:5.01-511.el10          baseos      124 k
 perl-threads              ppc64le   1:2.40-511.el10          appstream    59 k
 perl-threads-shared       ppc64le   1.69-511.el10            appstream    47 k
 perl-vars                 noarch    1.05-514.el10            appstream    14 k
 perl-version              ppc64le   8:0.99.32-4.el10         appstream    65 k
 python3                   ppc64le   3.12.12-3.el10           baseos       28 k
 python3-libs              ppc64le   3.12.12-3.el10           baseos      9.5 M
 python3-pip-wheel         noarch    23.3.2-7.el10            baseos      1.5 M
 python3-pyparsing         noarch    3.1.1-7.el10             baseos      269 k
 systemtap-sdt-devel       ppc64le   5.4-3.el10               appstream    69 k
 systemtap-sdt-dtrace      ppc64le   5.4-3.el10               appstream    70 k
 tzdata                    noarch    2025c-1.el10             baseos      904 k

Transaction Summary
================================================================================
Install  113 Packages

Total download size: 78 M
Installed size: 250 M
Downloading Packages:
(1/113): htslib-devel-1.23-1.el10.ppc64le.rpm   370 kB/s | 107 kB     00:00    
(2/113): htslib-1.23-1.el10.ppc64le.rpm         1.6 MB/s | 634 kB     00:00    
(3/113): htslib-tools-1.23-1.el10.ppc64le.rpm   1.9 MB/s | 806 kB     00:00    
(4/113): libatomic-14.3.1-4.2.el10.ppc64le.rpm   53 kB/s |  56 kB     00:01    
(5/113): expat-2.7.3-1.el10.ppc64le.rpm          87 kB/s | 124 kB     00:01    
(6/113): make-4.4.1-9.el10.ppc64le.rpm          767 kB/s | 600 kB     00:00    
(7/113): ncurses-6.4-14.20240127.el10.ppc64le.r 2.7 MB/s | 431 kB     00:00    
(8/113): perl-Carp-1.54-511.el10.noarch.rpm     200 kB/s |  30 kB     00:00    
(9/113): perl-Data-Dumper-2.189-512.el10.ppc64l 403 kB/s |  58 kB     00:00    
(10/113): mpdecimal-2.5.1-12.el10.ppc64le.rpm   102 kB/s | 105 kB     00:01    
(11/113): perl-Digest-1.20-511.el10.noarch.rpm  165 kB/s |  26 kB     00:00    
(12/113): perl-Digest-MD5-2.59-6.el10.ppc64le.r 230 kB/s |  37 kB     00:00    
(13/113): perl-Exporter-5.78-511.el10.noarch.rp 237 kB/s |  32 kB     00:00    
(14/113): perl-File-Temp-0.231.100-512.el10.noa 442 kB/s |  60 kB     00:00    
(15/113): perl-Encode-3.21-511.el10.ppc64le.rpm 3.4 MB/s | 1.1 MB     00:00    
(16/113): perl-Getopt-Long-2.58-3.el10.noarch.r 427 kB/s |  65 kB     00:00    
(17/113): perl-HTTP-Tiny-0.088-512.el10.noarch. 430 kB/s |  57 kB     00:00    
(18/113): perl-IO-Socket-IP-0.42-512.el10.noarc 239 kB/s |  43 kB     00:00    
(19/113): perl-IO-Socket-SSL-2.085-3.el10.noarc 1.2 MB/s | 227 kB     00:00    
(20/113): perl-Mozilla-CA-20231213-5.el10.noarc 119 kB/s |  15 kB     00:00    
(21/113): perl-MIME-Base64-3.16-511.el10.ppc64l  97 kB/s |  32 kB     00:00    
(22/113): perl-PathTools-3.91-512.el10.ppc64le. 381 kB/s |  85 kB     00:00    
(23/113): perl-Pod-Escapes-1.07-511.el10.noarch 162 kB/s |  21 kB     00:00    
(24/113): perl-Pod-Perldoc-3.28.01-512.el10.noa 447 kB/s |  84 kB     00:00    
(25/113): perl-Pod-Usage-2.03-511.el10.noarch.r 252 kB/s |  41 kB     00:00    
(26/113): perl-Pod-Simple-3.45-511.el10.noarch. 670 kB/s | 218 kB     00:00    
(27/113): perl-Scalar-List-Utils-1.63-511.el10. 575 kB/s |  77 kB     00:00    
(28/113): perl-Socket-2.038-511.el10.ppc64le.rp 343 kB/s |  56 kB     00:00    
(29/113): perl-Storable-3.32-511.el10.ppc64le.r 705 kB/s | 103 kB     00:00    
(30/113): perl-Term-ANSIColor-5.01-512.el10.noa 440 kB/s |  49 kB     00:00    
(31/113): perl-Term-Cap-1.18-511.el10.noarch.rp 223 kB/s |  23 kB     00:00    
(32/113): perl-Text-ParseWords-3.31-511.el10.no 156 kB/s |  17 kB     00:00    
(33/113): perl-Text-Tabs+Wrap-2024.001-511.el10 221 kB/s |  23 kB     00:00    
(34/113): perl-Time-Local-1.350-511.el10.noarch 318 kB/s |  35 kB     00:00    
(35/113): perl-URI-5.27-3.el10.noarch.rpm       1.2 MB/s | 134 kB     00:00    
(36/113): perl-constant-1.33-512.el10.noarch.rp 217 kB/s |  24 kB     00:00    
(37/113): perl-libnet-3.15-512.el10.noarch.rpm  1.1 MB/s | 127 kB     00:00    
(38/113): perl-parent-0.241-512.el10.noarch.rpm 145 kB/s |  16 kB     00:00    
(39/113): perl-podlators-5.01-511.el10.noarch.r 960 kB/s | 124 kB     00:00    
(40/113): python3-3.12.12-3.el10.ppc64le.rpm    192 kB/s |  28 kB     00:00    
(41/113): groff-base-1.23.0-10.el10.ppc64le.rpm 210 kB/s | 1.1 MB     00:05    
(42/113): python3-libs-3.12.12-3.el10.ppc64le.r 6.7 MB/s | 9.5 MB     00:01    
(43/113): python3-pip-wheel-23.3.2-7.el10.noarc 1.0 MB/s | 1.5 MB     00:01    
(44/113): python3-pyparsing-3.1.1-7.el10.noarch 364 kB/s | 269 kB     00:00    
(45/113): tzdata-2025c-1.el10.noarch.rpm        2.4 MB/s | 904 kB     00:00    
(46/113): annobin-docs-13.02-2.el10.noarch.rpm  200 kB/s |  87 kB     00:00    
(47/113): automake-1.16.5-20.el10.noarch.rpm    1.3 MB/s | 702 kB     00:00    
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(58/113): libxcrypt-devel-4.4.36-10.el10.ppc64l 213 kB/s |  30 kB     00:00    
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(68/113): perl-Devel-PPPort-3.72-512.el10.ppc64 1.0 MB/s | 222 kB     00:00    
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(70/113): perl-ExtUtils-Constant-0.25-514.el10. 389 kB/s |  44 kB     00:00    
(71/113): perl-ExtUtils-Command-7.70-513.el10.n 117 kB/s |  15 kB     00:00    
(72/113): perl-ExtUtils-Embed-1.35-514.el10.noa 151 kB/s |  18 kB     00:00    
(73/113): perl-ExtUtils-Install-2.22-511.el10.n 346 kB/s |  44 kB     00:00    
(74/113): perl-ExtUtils-MakeMaker-7.70-513.el10 1.8 MB/s | 293 kB     00:00    
(75/113): perl-ExtUtils-Manifest-1.75-511.el10. 308 kB/s |  35 kB     00:00    
(76/113): perl-ExtUtils-ParseXS-3.51-512.el10.n 1.3 MB/s | 186 kB     00:00    
(77/113): perl-Fcntl-1.18-514.el10.ppc64le.rpm  263 kB/s |  31 kB     00:00    
(78/113): perl-File-Basename-2.86-514.el10.noar 156 kB/s |  18 kB     00:00    
(79/113): perl-File-Compare-1.100.800-514.el10. 130 kB/s |  14 kB     00:00    
(80/113): perl-File-Copy-2.41-514.el10.noarch.r 188 kB/s |  21 kB     00:00    
(81/113): perl-File-Find-1.44-514.el10.noarch.r 193 kB/s |  26 kB     00:00    
(82/113): perl-File-Path-2.18-512.el10.noarch.r 289 kB/s |  35 kB     00:00    
(83/113): perl-File-stat-1.14-514.el10.noarch.r 153 kB/s |  18 kB     00:00    
(84/113): perl-FileHandle-2.05-514.el10.noarch. 134 kB/s |  16 kB     00:00    
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(86/113): perl-Getopt-Std-1.14-514.el10.noarch. 154 kB/s |  16 kB     00:00    
(87/113): perl-IO-1.55-514.el10.ppc64le.rpm     750 kB/s |  81 kB     00:00    
(88/113): perl-IPC-Open3-1.22-514.el10.noarch.r 226 kB/s |  23 kB     00:00    
(89/113): perl-Net-SSLeay-1.94-8.el10.ppc64le.r 2.6 MB/s | 394 kB     00:00    
(90/113): perl-POSIX-2.20-514.el10.ppc64le.rpm  858 kB/s |  99 kB     00:00    
(91/113): perl-SelectSaver-1.02-514.el10.noarch  98 kB/s |  12 kB     00:00    
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(93/113): perl-Test-Harness-3.48-512.el10.noarc 2.2 MB/s | 284 kB     00:00    
(94/113): perl-Thread-Queue-3.14-511.el10.noarc 189 kB/s |  22 kB     00:00    
(95/113): perl-base-2.27-514.el10.noarch.rpm    160 kB/s |  17 kB     00:00    
(96/113): perl-devel-5.40.2-514.el10.ppc64le.rp 5.8 MB/s | 768 kB     00:00    
(97/113): perl-if-0.61.000-514.el10.noarch.rpm  118 kB/s |  15 kB     00:00    
(98/113): perl-interpreter-5.40.2-514.el10.ppc6 631 kB/s |  73 kB     00:00    
(99/113): perl-lib-0.65-514.el10.ppc64le.rpm    153 kB/s |  16 kB     00:00    
(100/113): perl-libs-5.40.2-514.el10.ppc64le.rp  13 MB/s | 2.5 MB     00:00    
(101/113): perl-locale-1.12-514.el10.noarch.rpm  88 kB/s |  14 kB     00:00    
(102/113): perl-mro-1.29-514.el10.ppc64le.rpm   275 kB/s |  31 kB     00:00    
(103/113): perl-overloading-0.02-514.el10.noarc 126 kB/s |  14 kB     00:00    
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(105/113): perl-threads-2.40-511.el10.ppc64le.r 546 kB/s |  59 kB     00:00    
(106/113): perl-threads-shared-1.69-511.el10.pp 402 kB/s |  47 kB     00:00    
(107/113): perl-vars-1.05-514.el10.noarch.rpm   133 kB/s |  14 kB     00:00    
(108/113): perl-version-0.99.32-4.el10.ppc64le. 630 kB/s |  65 kB     00:00    
(109/113): systemtap-sdt-devel-5.4-3.el10.ppc64 604 kB/s |  69 kB     00:00    
(110/113): systemtap-sdt-dtrace-5.4-3.el10.ppc6 555 kB/s |  70 kB     00:00    
(111/113): zlib-ng-compat-devel-2.2.3-3.el10.pp 277 kB/s |  36 kB     00:00    
[MIRROR] gsl-2.7.1-11.el10_0.ppc64le.rpm: Curl error (28): Timeout was reached for https://dl.fedoraproject.org/pub/epel/10.2/Everything/ppc64le/Packages/g/gsl-2.7.1-11.el10_0.ppc64le.rpm [Connection timed out after 30002 milliseconds]
[MIRROR] gsl-devel-2.7.1-11.el10_0.ppc64le.rpm: Curl error (28): Timeout was reached for https://dl.fedoraproject.org/pub/epel/10.2/Everything/ppc64le/Packages/g/gsl-devel-2.7.1-11.el10_0.ppc64le.rpm [Connection timed out after 30000 milliseconds]
(112/113): gsl-2.7.1-11.el10_0.ppc64le.rpm       38 kB/s | 1.1 MB     00:30    
(113/113): gsl-devel-2.7.1-11.el10_0.ppc64le.rp  20 kB/s | 610 kB     00:30    
--------------------------------------------------------------------------------
Total                                           1.8 MB/s |  78 MB     00:42     
Running transaction check
Transaction check succeeded.
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Running transaction
  Preparing        :                                                        1/1 
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  Installing       : ncurses-6.4-14.20240127.el10.ppc64le                16/113 
  Installing       : mpdecimal-2.5.1-12.el10.ppc64le                     17/113 
  Installing       : make-1:4.4.1-9.el10.ppc64le                         18/113 
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  Installing       : perl-Pod-Escapes-1:1.07-511.el10.noarch             36/113 
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  Installing       : perl-Symbol-1.09-514.el10.noarch                    50/113 
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  Installing       : perl-podlators-1:5.01-511.el10.noarch               52/113 
  Installing       : perl-Pod-Perldoc-3.28.01-512.el10.noarch            53/113 
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  Installing       : perl-MIME-Base64-3.16-511.el10.ppc64le              61/113 
  Installing       : perl-Scalar-List-Utils-5:1.63-511.el10.ppc64le      62/113 
  Installing       : perl-constant-1.33-512.el10.noarch                  63/113 
  Installing       : perl-parent-1:0.241-512.el10.noarch                 64/113 
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  Installing       : perl-Carp-1.54-511.el10.noarch                      72/113 
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  Installing       : perl-libs-4:5.40.2-514.el10.ppc64le                 77/113 
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  Installing       : automake-1.16.5-20.el10.noarch                      87/113 
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  Installing       : perl-AutoSplit-5.74-514.el10.noarch                 90/113 
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  Installing       : perl-Devel-PPPort-3.72-512.el10.ppc64le             93/113 
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  Installing       : perl-lib-0.65-514.el10.ppc64le                      95/113 
  Installing       : perl-version-8:0.99.32-4.el10.ppc64le               96/113 
  Installing       : expat-2.7.3-1.el10.ppc64le                          97/113 
  Installing       : python3-3.12.12-3.el10.ppc64le                      98/113 
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  Running scriptlet: gcc-plugin-annobin-14.3.1-4.2.el10.ppc64le         110/113 
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  Running scriptlet: htslib-tools-1.23-1.el10.ppc64le                   113/113 

Installed:
  annobin-docs-13.02-2.el10.noarch                                              
  annobin-plugin-gcc-13.02-2.el10.ppc64le                                       
  autoconf-2.71-13.el10.noarch                                                  
  automake-1.16.5-20.el10.noarch                                                
  cmake-filesystem-3.31.8-1.el10.ppc64le                                        
  cpp-14.3.1-4.2.el10.ppc64le                                                   
  emacs-filesystem-1:29.4-12.el10.noarch                                        
  expat-2.7.3-1.el10.ppc64le                                                    
  gcc-14.3.1-4.2.el10.ppc64le                                                   
  gcc-plugin-annobin-14.3.1-4.2.el10.ppc64le                                    
  glibc-devel-2.39-99.el10.ppc64le                                              
  groff-base-1.23.0-10.el10.ppc64le                                             
  gsl-2.7.1-11.el10_0.ppc64le                                                   
  gsl-devel-2.7.1-11.el10_0.ppc64le                                             
  htslib-1.23-1.el10.ppc64le                                                    
  htslib-devel-1.23-1.el10.ppc64le                                              
  htslib-tools-1.23-1.el10.ppc64le                                              
  kernel-headers-6.12.0-191.el10.ppc64le                                        
  libasan-14.3.1-4.2.el10.ppc64le                                               
  libatomic-14.3.1-4.2.el10.ppc64le                                             
  libmpc-1.3.1-7.el10.ppc64le                                                   
  libubsan-14.3.1-4.2.el10.ppc64le                                              
  libxcrypt-devel-4.4.36-10.el10.ppc64le                                        
  m4-1.4.19-11.el10.ppc64le                                                     
  make-1:4.4.1-9.el10.ppc64le                                                   
  mpdecimal-2.5.1-12.el10.ppc64le                                               
  ncurses-6.4-14.20240127.el10.ppc64le                                          
  perl-AutoLoader-5.74-514.el10.noarch                                          
  perl-AutoSplit-5.74-514.el10.noarch                                           
  perl-B-1.89-514.el10.ppc64le                                                  
  perl-Benchmark-1.25-514.el10.noarch                                           
  perl-Carp-1.54-511.el10.noarch                                                
  perl-Class-Struct-0.68-514.el10.noarch                                        
  perl-Data-Dumper-2.189-512.el10.ppc64le                                       
  perl-Devel-PPPort-3.72-512.el10.ppc64le                                       
  perl-Digest-1.20-511.el10.noarch                                              
  perl-Digest-MD5-2.59-6.el10.ppc64le                                           
  perl-DynaLoader-1.56-514.el10.ppc64le                                         
  perl-Encode-4:3.21-511.el10.ppc64le                                           
  perl-Errno-1.38-514.el10.ppc64le                                              
  perl-Exporter-5.78-511.el10.noarch                                            
  perl-ExtUtils-Command-2:7.70-513.el10.noarch                                  
  perl-ExtUtils-Constant-0.25-514.el10.noarch                                   
  perl-ExtUtils-Embed-1.35-514.el10.noarch                                      
  perl-ExtUtils-Install-2.22-511.el10.noarch                                    
  perl-ExtUtils-MakeMaker-2:7.70-513.el10.noarch                                
  perl-ExtUtils-Manifest-1:1.75-511.el10.noarch                                 
  perl-ExtUtils-ParseXS-1:3.51-512.el10.noarch                                  
  perl-Fcntl-1.18-514.el10.ppc64le                                              
  perl-File-Basename-2.86-514.el10.noarch                                       
  perl-File-Compare-1.100.800-514.el10.noarch                                   
  perl-File-Copy-2.41-514.el10.noarch                                           
  perl-File-Find-1.44-514.el10.noarch                                           
  perl-File-Path-2.18-512.el10.noarch                                           
  perl-File-Temp-1:0.231.100-512.el10.noarch                                    
  perl-File-stat-1.14-514.el10.noarch                                           
  perl-FileHandle-2.05-514.el10.noarch                                          
  perl-FindBin-1.54-514.el10.noarch                                             
  perl-Getopt-Long-1:2.58-3.el10.noarch                                         
  perl-Getopt-Std-1.14-514.el10.noarch                                          
  perl-HTTP-Tiny-0.088-512.el10.noarch                                          
  perl-IO-1.55-514.el10.ppc64le                                                 
  perl-IO-Socket-IP-0.42-512.el10.noarch                                        
  perl-IO-Socket-SSL-2.085-3.el10.noarch                                        
  perl-IPC-Open3-1.22-514.el10.noarch                                           
  perl-MIME-Base64-3.16-511.el10.ppc64le                                        
  perl-Mozilla-CA-20231213-5.el10.noarch                                        
  perl-Net-SSLeay-1.94-8.el10.ppc64le                                           
  perl-POSIX-2.20-514.el10.ppc64le                                              
  perl-PathTools-3.91-512.el10.ppc64le                                          
  perl-Pod-Escapes-1:1.07-511.el10.noarch                                       
  perl-Pod-Perldoc-3.28.01-512.el10.noarch                                      
  perl-Pod-Simple-1:3.45-511.el10.noarch                                        
  perl-Pod-Usage-4:2.03-511.el10.noarch                                         
  perl-Scalar-List-Utils-5:1.63-511.el10.ppc64le                                
  perl-SelectSaver-1.02-514.el10.noarch                                         
  perl-Socket-4:2.038-511.el10.ppc64le                                          
  perl-Storable-1:3.32-511.el10.ppc64le                                         
  perl-Symbol-1.09-514.el10.noarch                                              
  perl-Term-ANSIColor-5.01-512.el10.noarch                                      
  perl-Term-Cap-1.18-511.el10.noarch                                            
  perl-Test-Harness-1:3.48-512.el10.noarch                                      
  perl-Text-ParseWords-3.31-511.el10.noarch                                     
  perl-Text-Tabs+Wrap-2024.001-511.el10.noarch                                  
  perl-Thread-Queue-3.14-511.el10.noarch                                        
  perl-Time-Local-2:1.350-511.el10.noarch                                       
  perl-URI-5.27-3.el10.noarch                                                   
  perl-base-2.27-514.el10.noarch                                                
  perl-constant-1.33-512.el10.noarch                                            
  perl-devel-4:5.40.2-514.el10.ppc64le                                          
  perl-if-0.61.000-514.el10.noarch                                              
  perl-interpreter-4:5.40.2-514.el10.ppc64le                                    
  perl-lib-0.65-514.el10.ppc64le                                                
  perl-libnet-3.15-512.el10.noarch                                              
  perl-libs-4:5.40.2-514.el10.ppc64le                                           
  perl-locale-1.12-514.el10.noarch                                              
  perl-mro-1.29-514.el10.ppc64le                                                
  perl-overload-1.37-514.el10.noarch                                            
  perl-overloading-0.02-514.el10.noarch                                         
  perl-parent-1:0.241-512.el10.noarch                                           
  perl-podlators-1:5.01-511.el10.noarch                                         
  perl-threads-1:2.40-511.el10.ppc64le                                          
  perl-threads-shared-1.69-511.el10.ppc64le                                     
  perl-vars-1.05-514.el10.noarch                                                
  perl-version-8:0.99.32-4.el10.ppc64le                                         
  python3-3.12.12-3.el10.ppc64le                                                
  python3-libs-3.12.12-3.el10.ppc64le                                           
  python3-pip-wheel-23.3.2-7.el10.noarch                                        
  python3-pyparsing-3.1.1-7.el10.noarch                                         
  systemtap-sdt-devel-5.4-3.el10.ppc64le                                        
  systemtap-sdt-dtrace-5.4-3.el10.ppc64le                                       
  tzdata-2025c-1.el10.noarch                                                    
  zlib-ng-compat-devel-2.2.3-3.el10.ppc64le                                     

Complete!
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1769040000
Wrote: /builddir/build/SRPMS/bcftools-1.23-1.el10.src.rpm
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Copr repository                                 5.7 kB/s | 1.5 kB     00:00    
CentOS Stream 10 - BaseOS                       528 kB/s |  22 kB     00:00    
CentOS Stream 10 - AppStream                    730 kB/s |  23 kB     00:00    
CentOS Stream 10 - CRB                          646 kB/s |  21 kB     00:00    
CentOS Stream 10 - Extras packages              863 kB/s |  28 kB     00:00    
Extra Packages for Enterprise Linux 10 - ppc64l 753 kB/s |  30 kB     00:00    
Package autoconf-2.71-13.el10.noarch is already installed.
Package automake-1.16.5-20.el10.noarch is already installed.
Package gcc-14.3.1-4.2.el10.ppc64le is already installed.
Package gsl-devel-2.7.1-11.el10_0.ppc64le is already installed.
Package htslib-devel-1.23-1.el10.ppc64le is already installed.
Package htslib-tools-1.23-1.el10.ppc64le is already installed.
Package make-1:4.4.1-9.el10.ppc64le is already installed.
Package perl-ExtUtils-Embed-1.35-514.el10.noarch is already installed.
Package perl-File-Temp-1:0.231.100-512.el10.noarch is already installed.
Package perl-FindBin-1.54-514.el10.noarch is already installed.
Package perl-Getopt-Long-1:2.58-3.el10.noarch is already installed.
Package perl-interpreter-4:5.40.2-514.el10.ppc64le is already installed.
Package zlib-ng-compat-devel-2.2.3-3.el10.ppc64le is already installed.
Dependencies resolved.
Nothing to do.
Complete!
Finish: build setup for bcftools-1.23-1.el10.src.rpm
Start: rpmbuild bcftools-1.23-1.el10.src.rpm
Building target platforms: ppc64le
Building for target ppc64le
setting SOURCE_DATE_EPOCH=1769040000
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.PBISn0
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/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
+ rm -rf /builddir/build/BUILD/bcftools-1.23-SPECPARTS
+ /usr/bin/mkdir -p /builddir/build/BUILD/bcftools-1.23-SPECPARTS
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
Patch #0 (bcftools-1.23-perl-fix-stray-errors-ldflags.patch):
+ echo 'Patch #0 (bcftools-1.23-perl-fix-stray-errors-ldflags.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0
patching file configure.ac
+ sed -i '1s|/usr/bin/env perl|/usr/bin/perl|' misc/color-chrs.pl misc/demo-flt.pl misc/run-roh.pl misc/vcfutils.pl misc/plot-vcfstats
+ sed -i '1s|/usr/bin/env python3\{0,1\}|/usr/bin/python3|' misc/gff2gff.py misc/guess-ploidy.py misc/plot-roh.py
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.WdFJ1m
+ umask 022
+ cd /builddir/build/BUILD
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ 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: running: /usr/bin/autoconf --force
configure.ac:94: warning: _AC_CONFIG_SUBDIRS: you should use literals
./lib/autoconf/status.m4:1096: AC_CONFIG_SUBDIRS is expanded from...
m4/ax_with_htslib.m4:55: AX_WITH_HTSLIB is expanded from...
configure.ac:94: the top level
autoreconf: running: /usr/bin/autoheader --force
autoreconf: configure.ac: not using Automake
autoreconf: Leaving directory '.'
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ 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};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./htslib-1.23/configure
+ diff -u ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ mv ./htslib-1.23/configure.backup ./htslib-1.23/configure
+ '[' 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 $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./htslib-1.23/config.sub
+ '[' -f /usr/lib/rpm/redhat/config.sub ']'
+ /usr/bin/rm -f ./htslib-1.23/config.sub
++ basename ./htslib-1.23/config.sub
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./htslib-1.23/config.sub
'/usr/lib/rpm/redhat/config.sub' -> './htslib-1.23/config.sub'
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors' ']'
++ find . -name ltmain.sh
++ grep -q runstatedir=DIR ./configure
++ echo --runstatedir=/run
+ ./configure --build=ppc64le-redhat-linux --host=ppc64le-redhat-linux --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --runstatedir=/run --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' --prefix=/usr --with-htslib=system --enable-perl-filters --enable-libgsl '--with-bcf-plugin-path=/usr/local/libexec/bcftools:$(plugindir)'
checking for ppc64le-redhat-linux-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether 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 special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking for htslib/sam.h... yes
checking for hts_version in -lhts... yes
checking shared library type... plain .so
checking for library containing dlopen... none required
checking if the compiler accepts -rdynamic... yes
checking for zlib.h... yes
checking for inflate in -lz... yes
checking for gsl/gsl_version.h... yes
checking for library containing cblas_dgemm... -lgslcblas
checking for gsl_multifit_gradient in -lgsl... yes
configure: removing -specs=...redhat-hardened... from Perl options
checking for library containing Perl_call_pv... -lperl
checking for library containing regcomp... none required
configure: creating ./config.status
config.status: creating config.mk
config.status: creating config.h
configure: License has been changed to GPL.

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

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

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

+ /usr/bin/make -O -j5 V=1 VERBOSE=1
echo '#define BCFTOOLS_VERSION "1.23"' > version.h
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o tabix.o tabix.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfindex.o vcfindex.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfquery.o vcfquery.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfisec.o vcfisec.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcffilter.o vcffilter.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfsom.o vcfsom.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfstats.o vcfstats.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfgtcheck.o vcfgtcheck.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfview.o vcfview.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfroh.o vcfroh.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfnorm.o vcfnorm.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfconcat.o vcfconcat.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfmerge.o vcfmerge.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcmp.o vcmp.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfcall.o vcfcall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o gvcf.o gvcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o mcall.o mcall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfannotate.o vcfannotate.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o tsv2vcf.o tsv2vcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -fwrapv -fno-strict-aliasing -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/perl5/CORE -c -o filter.o filter.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o reheader.o reheader.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfhead.o vcfhead.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o HMM.o HMM.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfcnv.o vcfcnv.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o ploidy.o ploidy.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bin.o bin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfconvert.o vcfconvert.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o version.o version.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o hclust.o hclust.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o consensus.o consensus.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o smpl_ilist.o smpl_ilist.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o regidx.o regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o convert.o convert.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfbuf.o vcfbuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o mpileup.o mpileup.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf.o bam2bcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf_indel.o bam2bcf_indel.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf_iaux.o bam2bcf_iaux.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfsort.o vcfsort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o read_consensus.o read_consensus.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o cols.o cols.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam_sample.o bam_sample.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o dist.o dist.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o extsort.o extsort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf_edlib.o bam2bcf_edlib.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o em.o em.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o ccall.o ccall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o kmin.o kmin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o str_finder.o str_finder.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o prob1.o prob1.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o abuf.o abuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o csq.o csq.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o edlib.o edlib.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o mpileup2/mpileup.o mpileup2/mpileup.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o peakfit.o peakfit.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.   -DPLUGINPATH='"/usr/local/libexec/bcftools:/usr/libexec/bcftools"' -c -o vcfplugin.o vcfplugin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o test/test-rbuf.o test/test-rbuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o polysomy.o polysomy.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o test/test-regidx.o test/test-regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o gff.o gff.c
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.   -DUSE_GPL -c -o main.o main.c
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
gcc -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o test/test-rbuf test/test-rbuf.o -lz  
gcc  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  -o test/test-regidx test/test-regidx.o regidx.o -lhts -lpthread -lz  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I.    -D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -fwrapv -fno-strict-aliasing -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/perl5/CORE -Wl,-z,relro -Wl,--as-needed  -Wl,-z,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  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -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 
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.2L1wwR
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le
++ dirname /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ 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/BUILDROOT/bcftools-1.23-1.el10.ppc64le 'INSTALL=/usr/bin/install -p'
mkdir -p -m 755 /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/bin /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/man/man1 /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/libexec/bcftools
/usr/bin/install -p bcftools /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/bin
/usr/bin/install -p misc/color-chrs.pl misc/gff2gff misc/gff2gff.py misc/guess-ploidy.py misc/plot-vcfstats misc/plot-roh.py misc/roh-viz misc/run-roh.pl misc/vcfutils.pl misc/vrfs-variances /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/bin
/usr/bin/install -p -m 644 doc/bcftools.1 /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/man/man1
/usr/bin/install -p plugins/*.so /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/libexec/bcftools
+ /usr/bin/find-debuginfo -j5 --strict-build-id -m -i --build-id-seed 1.23-1.el10 --unique-debug-suffix -1.23-1.el10.ppc64le --unique-debug-src-base bcftools-1.23-1.el10.ppc64le --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/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.el10.ppc64le
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
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 -j5
+ /usr/lib/rpm/redhat/brp-python-hardlink
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.NRCe3B
+ umask 022
+ cd /builddir/build/BUILD
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection '
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mcpu=power9 -mtune=power10 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ 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 (0x00007fff8ab70000)
+ make test
./test/test-rbuf
Inserted 1-9 starting at offset 5:
  5  6  7  8  9  0  1  2  3
  1  2  3  4  5  6  7  8  9
4th is 4
Deleting 1-2:
  7  8  9  0  1  2  3
  3  4  5  6  7  8  9
Prepending 0-8:
  8  9  0  1  2  3  4  5  6  7
  8  7  6  5  4  3  2  1  0  3
Expanding:
  8  9 10 11 12 13 14 15 16 17
  8  7  6  5  4  3  2  1  0  3
./test/test-regidx
REF_PATH=: ./test/test.pl --plugins --exec bgzip= --exec tabix= --htsdir= ${TEST_OPTS:-}
test_usage:
	bcftools
./test/test.pl: module IO::Pty not found; skipping usage tests
test_tabix:
	tabix /tmp/S78K2owDcN/merge.a.vcf.gz 2:3199812-3199812
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/merge.a.bcf 2:3199812-3199812
.. ok

test_tabix:
	tabix /tmp/S78K2owDcN/merge.a.vcf.gz 1:3000151-3000151
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/merge.a.bcf 1:3000151-3000151
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -H /tmp/S78K2owDcN/large_chrom_csi_limit.bcf chr20
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/S78K2owDcN/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/S78K2owDcN/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/S78K2owDcN/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/idx.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/idx.bcf.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/S78K2owDcN/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/S78K2owDcN/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -s /tmp/S78K2owDcN/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/empty.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.23/bcftools index -n /tmp/S78K2owDcN/empty.bcf.csi
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s - /tmp/S78K2owDcN/check.vcf.gz | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools stats -s - | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_check_merge:
	/builddir/build/BUILD/bcftools-1.23/misc/plot-vcfstats -m /tmp/S78K2owDcN/check.1.chk /tmp/S78K2owDcN/check.2.chk /tmp/S78K2owDcN/check.3.chk /tmp/S78K2owDcN/check.4.chk | grep -v 'plot-vcfstats' | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s -  /tmp/S78K2owDcN/stats.a.vcf.gz /tmp/S78K2owDcN/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s B  /tmp/S78K2owDcN/stats.a.vcf.gz /tmp/S78K2owDcN/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s -  /tmp/S78K2owDcN/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s - -i 'type="snp"'  /tmp/S78K2owDcN/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.23/bcftools stats -s -  /tmp/S78K2owDcN/stats.vaf.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -w 2 --no-version /tmp/S78K2owDcN/isec.match-id.1.1.vcf.gz /tmp/S78K2owDcN/isec.match-id.1.2.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -w 2 -c id --no-version /tmp/S78K2owDcN/isec.match-id.1.1.vcf.gz /tmp/S78K2owDcN/isec.match-id.1.2.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 /tmp/S78K2owDcN/isec.a.vcf.gz /tmp/S78K2owDcN/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -i"STRLEN(REF)==2" /tmp/S78K2owDcN/isec.a.vcf.gz /tmp/S78K2owDcN/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -c both /tmp/S78K2owDcN/isec.a.vcf.gz /tmp/S78K2owDcN/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n =2 -c any /tmp/S78K2owDcN/isec.a.vcf.gz /tmp/S78K2owDcN/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -C -c any /tmp/S78K2owDcN/isec.a.vcf.gz /tmp/S78K2owDcN/isec.b.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec --no-version   -T /tmp/S78K2owDcN/isec.tab.gz /tmp/S78K2owDcN/isec.a.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -Ob  -T /tmp/S78K2owDcN/isec.tab.gz /tmp/S78K2owDcN/isec.a.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/S78K2owDcN/isec-miss.1.1.vcf.gz /tmp/S78K2owDcN/isec-miss.1.2.vcf.gz /tmp/S78K2owDcN/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -R /builddir/build/BUILD/bcftools-1.23/test/isec-miss.1.regs.txt -n +1 /tmp/S78K2owDcN/isec-miss.1.1.vcf.gz /tmp/S78K2owDcN/isec-miss.1.2.vcf.gz /tmp/S78K2owDcN/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/S78K2owDcN/isec-miss.2.1.vcf.gz /tmp/S78K2owDcN/isec-miss.2.2.vcf.gz /tmp/S78K2owDcN/isec-miss.2.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.23/bcftools isec -R /builddir/build/BUILD/bcftools-1.23/test/isec-miss.1.regs.txt -n +1 /tmp/S78K2owDcN/isec-miss.2.1.vcf.gz /tmp/S78K2owDcN/isec-miss.2.2.vcf.gz /tmp/S78K2owDcN/isec-miss.2.3.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.broken-gvcf.a.vcf.gz /tmp/S78K2owDcN/merge.broken-gvcf.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.broken-gvcf.a.vcf.gz /tmp/S78K2owDcN/merge.broken-gvcf.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.broken-gvcf.a.bcf /tmp/S78K2owDcN/merge.broken-gvcf.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.broken-gvcf.a.bcf /tmp/S78K2owDcN/merge.broken-gvcf.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.symbolic.1.a.vcf.gz /tmp/S78K2owDcN/merge.symbolic.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.symbolic.1.a.vcf.gz /tmp/S78K2owDcN/merge.symbolic.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.symbolic.1.a.bcf /tmp/S78K2owDcN/merge.symbolic.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.symbolic.1.a.bcf /tmp/S78K2owDcN/merge.symbolic.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge none /tmp/S78K2owDcN/merge.multiallelics.1.a.vcf.gz /tmp/S78K2owDcN/merge.multiallelics.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/S78K2owDcN/merge.multiallelics.1.a.vcf.gz /tmp/S78K2owDcN/merge.multiallelics.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge none /tmp/S78K2owDcN/merge.multiallelics.1.a.bcf /tmp/S78K2owDcN/merge.multiallelics.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/S78K2owDcN/merge.multiallelics.1.a.bcf /tmp/S78K2owDcN/merge.multiallelics.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge both /tmp/S78K2owDcN/merge.multiallelics.1.a.vcf.gz /tmp/S78K2owDcN/merge.multiallelics.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/S78K2owDcN/merge.multiallelics.1.a.vcf.gz /tmp/S78K2owDcN/merge.multiallelics.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge both /tmp/S78K2owDcN/merge.multiallelics.1.a.bcf /tmp/S78K2owDcN/merge.multiallelics.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/S78K2owDcN/merge.multiallelics.1.a.bcf /tmp/S78K2owDcN/merge.multiallelics.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge none /tmp/S78K2owDcN/merge.12.a.vcf.gz /tmp/S78K2owDcN/merge.12.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/S78K2owDcN/merge.12.a.vcf.gz /tmp/S78K2owDcN/merge.12.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge none /tmp/S78K2owDcN/merge.12.a.bcf /tmp/S78K2owDcN/merge.12.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge none /tmp/S78K2owDcN/merge.12.a.bcf /tmp/S78K2owDcN/merge.12.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge both /tmp/S78K2owDcN/merge.12.a.vcf.gz /tmp/S78K2owDcN/merge.12.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/S78K2owDcN/merge.12.a.vcf.gz /tmp/S78K2owDcN/merge.12.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --merge both /tmp/S78K2owDcN/merge.12.a.bcf /tmp/S78K2owDcN/merge.12.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --merge both /tmp/S78K2owDcN/merge.12.a.bcf /tmp/S78K2owDcN/merge.12.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.phased.1.a.vcf.gz /tmp/S78K2owDcN/merge.phased.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.phased.1.a.vcf.gz /tmp/S78K2owDcN/merge.phased.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.phased.1.a.bcf /tmp/S78K2owDcN/merge.phased.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.phased.1.a.bcf /tmp/S78K2owDcN/merge.phased.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.11.a.vcf.gz /tmp/S78K2owDcN/merge.11.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.11.a.vcf.gz /tmp/S78K2owDcN/merge.11.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.11.a.bcf /tmp/S78K2owDcN/merge.11.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.11.a.bcf /tmp/S78K2owDcN/merge.11.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AF:join /tmp/S78K2owDcN/merge.join.a.vcf.gz /tmp/S78K2owDcN/merge.join.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AF:join /tmp/S78K2owDcN/merge.join.a.vcf.gz /tmp/S78K2owDcN/merge.join.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AF:join /tmp/S78K2owDcN/merge.join.a.bcf /tmp/S78K2owDcN/merge.join.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AF:join /tmp/S78K2owDcN/merge.join.a.bcf /tmp/S78K2owDcN/merge.join.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-single /tmp/S78K2owDcN/merge.LPL.a.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-single /tmp/S78K2owDcN/merge.LPL.a.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-single /tmp/S78K2owDcN/merge.LPL.a.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-single /tmp/S78K2owDcN/merge.LPL.a.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 1 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 1 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 2 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 2 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 3 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 3 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 4 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 4 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 5 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/S78K2owDcN/merge.LPL.a.vcf.gz /tmp/S78K2owDcN/merge.LPL.b.vcf.gz /tmp/S78K2owDcN/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -L 5 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/S78K2owDcN/merge.LPL.a.bcf /tmp/S78K2owDcN/merge.LPL.b.bcf /tmp/S78K2owDcN/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/S78K2owDcN/merge.a.vcf.gz /tmp/S78K2owDcN/merge.b.vcf.gz /tmp/S78K2owDcN/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/S78K2owDcN/merge.a.vcf.gz /tmp/S78K2owDcN/merge.b.vcf.gz /tmp/S78K2owDcN/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/S78K2owDcN/merge.a.bcf /tmp/S78K2owDcN/merge.b.bcf /tmp/S78K2owDcN/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/S78K2owDcN/merge.a.bcf /tmp/S78K2owDcN/merge.b.bcf /tmp/S78K2owDcN/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -Fx /tmp/S78K2owDcN/merge.a.vcf.gz /tmp/S78K2owDcN/merge.b.vcf.gz /tmp/S78K2owDcN/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -Fx /tmp/S78K2owDcN/merge.a.vcf.gz /tmp/S78K2owDcN/merge.b.vcf.gz /tmp/S78K2owDcN/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -Fx /tmp/S78K2owDcN/merge.a.bcf /tmp/S78K2owDcN/merge.b.bcf /tmp/S78K2owDcN/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -Fx /tmp/S78K2owDcN/merge.a.bcf /tmp/S78K2owDcN/merge.b.bcf /tmp/S78K2owDcN/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -0 /tmp/S78K2owDcN/merge.a.vcf.gz /tmp/S78K2owDcN/merge.b.vcf.gz /tmp/S78K2owDcN/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -0 /tmp/S78K2owDcN/merge.a.vcf.gz /tmp/S78K2owDcN/merge.b.vcf.gz /tmp/S78K2owDcN/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -0 /tmp/S78K2owDcN/merge.a.bcf /tmp/S78K2owDcN/merge.b.bcf /tmp/S78K2owDcN/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -0 /tmp/S78K2owDcN/merge.a.bcf /tmp/S78K2owDcN/merge.b.bcf /tmp/S78K2owDcN/merge.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m none /tmp/S78K2owDcN/merge.2.a.vcf.gz /tmp/S78K2owDcN/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m none /tmp/S78K2owDcN/merge.2.a.vcf.gz /tmp/S78K2owDcN/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m none /tmp/S78K2owDcN/merge.2.a.bcf /tmp/S78K2owDcN/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m none /tmp/S78K2owDcN/merge.2.a.bcf /tmp/S78K2owDcN/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m both /tmp/S78K2owDcN/merge.2.a.vcf.gz /tmp/S78K2owDcN/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m both /tmp/S78K2owDcN/merge.2.a.vcf.gz /tmp/S78K2owDcN/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m both /tmp/S78K2owDcN/merge.2.a.bcf /tmp/S78K2owDcN/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m both /tmp/S78K2owDcN/merge.2.a.bcf /tmp/S78K2owDcN/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m all /tmp/S78K2owDcN/merge.2.a.vcf.gz /tmp/S78K2owDcN/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m all /tmp/S78K2owDcN/merge.2.a.vcf.gz /tmp/S78K2owDcN/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m all /tmp/S78K2owDcN/merge.2.a.bcf /tmp/S78K2owDcN/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m all /tmp/S78K2owDcN/merge.2.a.bcf /tmp/S78K2owDcN/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/S78K2owDcN/merge.3.a.vcf.gz /tmp/S78K2owDcN/merge.3.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/S78K2owDcN/merge.3.a.vcf.gz /tmp/S78K2owDcN/merge.3.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/S78K2owDcN/merge.3.a.bcf /tmp/S78K2owDcN/merge.3.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/S78K2owDcN/merge.3.a.bcf /tmp/S78K2owDcN/merge.3.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m id /tmp/S78K2owDcN/merge.4.a.vcf.gz /tmp/S78K2owDcN/merge.4.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m id /tmp/S78K2owDcN/merge.4.a.vcf.gz /tmp/S78K2owDcN/merge.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples -m id /tmp/S78K2owDcN/merge.4.a.bcf /tmp/S78K2owDcN/merge.4.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples -m id /tmp/S78K2owDcN/merge.4.a.bcf /tmp/S78K2owDcN/merge.4.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/gvcf.merge.1.vcf.gz /tmp/S78K2owDcN/gvcf.merge.2.vcf.gz /tmp/S78K2owDcN/gvcf.merge.3.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/gvcf.merge.1.vcf.gz /tmp/S78K2owDcN/gvcf.merge.2.vcf.gz /tmp/S78K2owDcN/gvcf.merge.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/gvcf.merge.1.bcf /tmp/S78K2owDcN/gvcf.merge.2.bcf /tmp/S78K2owDcN/gvcf.merge.3.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/gvcf.merge.1.bcf /tmp/S78K2owDcN/gvcf.merge.2.bcf /tmp/S78K2owDcN/gvcf.merge.3.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.2.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.2.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -m both,* /tmp/S78K2owDcN/merge.gvcf.2.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -m both,* /tmp/S78K2owDcN/merge.gvcf.2.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -m both,** /tmp/S78K2owDcN/merge.gvcf.2.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -m both,** /tmp/S78K2owDcN/merge.gvcf.2.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -i SRC:join /tmp/S78K2owDcN/merge.gvcf.3.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.3.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -i SRC:join /tmp/S78K2owDcN/merge.gvcf.3.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.3.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.4.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.4.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.4.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.4.a.bcf /tmp/S78K2owDcN/merge.gvcf.4.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.4.a.bcf /tmp/S78K2owDcN/merge.gvcf.4.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.5.a.vcf.gz /tmp/S78K2owDcN/merge.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.5.a.vcf.gz /tmp/S78K2owDcN/merge.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.5.a.bcf /tmp/S78K2owDcN/merge.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.5.a.bcf /tmp/S78K2owDcN/merge.5.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.6.a.vcf.gz /tmp/S78K2owDcN/merge.6.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.6.a.vcf.gz /tmp/S78K2owDcN/merge.6.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.6.a.bcf /tmp/S78K2owDcN/merge.6.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.6.a.bcf /tmp/S78K2owDcN/merge.6.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.7.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.7.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.7.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.7.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.7.a.bcf /tmp/S78K2owDcN/merge.gvcf.7.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.7.a.bcf /tmp/S78K2owDcN/merge.gvcf.7.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.8.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.8.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.8.a.bcf /tmp/S78K2owDcN/merge.gvcf.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.8.a.bcf /tmp/S78K2owDcN/merge.gvcf.8.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/S78K2owDcN/merge.7.a.vcf.gz /tmp/S78K2owDcN/merge.7.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/S78K2owDcN/merge.7.a.vcf.gz /tmp/S78K2owDcN/merge.7.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --force-samples /tmp/S78K2owDcN/merge.7.a.bcf /tmp/S78K2owDcN/merge.7.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --force-samples /tmp/S78K2owDcN/merge.7.a.bcf /tmp/S78K2owDcN/merge.7.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/merge.gvcf.9a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9c.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9d.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/merge.gvcf.9a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9c.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9d.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/merge.gvcf.9a.bcf /tmp/S78K2owDcN/merge.gvcf.9b.bcf /tmp/S78K2owDcN/merge.gvcf.9c.bcf /tmp/S78K2owDcN/merge.gvcf.9d.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/merge.gvcf.9a.bcf /tmp/S78K2owDcN/merge.gvcf.9b.bcf /tmp/S78K2owDcN/merge.gvcf.9c.bcf /tmp/S78K2owDcN/merge.gvcf.9d.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/S78K2owDcN/merge.gvcf.9a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9c.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9d.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/S78K2owDcN/merge.gvcf.9a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9c.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9d.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/S78K2owDcN/merge.gvcf.9a.bcf /tmp/S78K2owDcN/merge.gvcf.9b.bcf /tmp/S78K2owDcN/merge.gvcf.9c.bcf /tmp/S78K2owDcN/merge.gvcf.9d.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/S78K2owDcN/merge.gvcf.9a.bcf /tmp/S78K2owDcN/merge.gvcf.9b.bcf /tmp/S78K2owDcN/merge.gvcf.9c.bcf /tmp/S78K2owDcN/merge.gvcf.9d.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/merge.gvcf.9a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9c.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9d.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9e.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/merge.gvcf.9a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9c.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9d.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9e.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/merge.gvcf.9a.bcf /tmp/S78K2owDcN/merge.gvcf.9b.bcf /tmp/S78K2owDcN/merge.gvcf.9c.bcf /tmp/S78K2owDcN/merge.gvcf.9d.bcf /tmp/S78K2owDcN/merge.gvcf.9e.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/merge.gvcf.9a.bcf /tmp/S78K2owDcN/merge.gvcf.9b.bcf /tmp/S78K2owDcN/merge.gvcf.9c.bcf /tmp/S78K2owDcN/merge.gvcf.9d.bcf /tmp/S78K2owDcN/merge.gvcf.9e.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/S78K2owDcN/merge.gvcf.9a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9c.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9d.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9e.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/S78K2owDcN/merge.gvcf.9a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9c.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9d.vcf.gz /tmp/S78K2owDcN/merge.gvcf.9e.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/S78K2owDcN/merge.gvcf.9a.bcf /tmp/S78K2owDcN/merge.gvcf.9b.bcf /tmp/S78K2owDcN/merge.gvcf.9c.bcf /tmp/S78K2owDcN/merge.gvcf.9d.bcf /tmp/S78K2owDcN/merge.gvcf.9e.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa -r 22:21-23 /tmp/S78K2owDcN/merge.gvcf.9a.bcf /tmp/S78K2owDcN/merge.gvcf.9b.bcf /tmp/S78K2owDcN/merge.gvcf.9c.bcf /tmp/S78K2owDcN/merge.gvcf.9d.bcf /tmp/S78K2owDcN/merge.gvcf.9e.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.gvcf.10.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.gvcf.10.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.gvcf.10.a.bcf /tmp/S78K2owDcN/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.gvcf.10.a.bcf /tmp/S78K2owDcN/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m none /tmp/S78K2owDcN/merge.gvcf.10.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/S78K2owDcN/merge.gvcf.10.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m none /tmp/S78K2owDcN/merge.gvcf.10.a.bcf /tmp/S78K2owDcN/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/S78K2owDcN/merge.gvcf.10.a.bcf /tmp/S78K2owDcN/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa /tmp/S78K2owDcN/merge.gvcf.10.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa /tmp/S78K2owDcN/merge.gvcf.10.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa /tmp/S78K2owDcN/merge.gvcf.10.a.bcf /tmp/S78K2owDcN/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa /tmp/S78K2owDcN/merge.gvcf.10.a.bcf /tmp/S78K2owDcN/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/S78K2owDcN/merge.gvcf.10.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/S78K2owDcN/merge.gvcf.10.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/S78K2owDcN/merge.gvcf.10.a.bcf /tmp/S78K2owDcN/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -g /builddir/build/BUILD/bcftools-1.23/test/merge.gvcf.10.fa -m none /tmp/S78K2owDcN/merge.gvcf.10.a.bcf /tmp/S78K2owDcN/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.noidx.a.vcf.gz /tmp/S78K2owDcN/merge.noidx.b.vcf.gz /tmp/S78K2owDcN/merge.noidx.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.noidx.a.vcf.gz /tmp/S78K2owDcN/merge.noidx.b.vcf.gz /tmp/S78K2owDcN/merge.noidx.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.noidx.a.bcf /tmp/S78K2owDcN/merge.noidx.b.bcf /tmp/S78K2owDcN/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.noidx.a.bcf /tmp/S78K2owDcN/merge.noidx.b.bcf /tmp/S78K2owDcN/merge.noidx.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

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

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

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --no-index /tmp/S78K2owDcN/merge.noidx.a.bcf /tmp/S78K2owDcN/merge.noidx.b.bcf /tmp/S78K2owDcN/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --no-index /tmp/S78K2owDcN/merge.noidx.a.bcf /tmp/S78K2owDcN/merge.noidx.b.bcf /tmp/S78K2owDcN/merge.noidx.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.8.a.vcf.gz /tmp/S78K2owDcN/merge.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.8.a.vcf.gz /tmp/S78K2owDcN/merge.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.8.a.bcf /tmp/S78K2owDcN/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.8.a.bcf /tmp/S78K2owDcN/merge.8.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/S78K2owDcN/merge.8.a.vcf.gz /tmp/S78K2owDcN/merge.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/S78K2owDcN/merge.8.a.vcf.gz /tmp/S78K2owDcN/merge.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/S78K2owDcN/merge.8.a.bcf /tmp/S78K2owDcN/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/S78K2owDcN/merge.8.a.bcf /tmp/S78K2owDcN/merge.8.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.9.a.vcf.gz /tmp/S78K2owDcN/merge.9.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.9.a.vcf.gz /tmp/S78K2owDcN/merge.9.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version  /tmp/S78K2owDcN/merge.9.a.bcf /tmp/S78K2owDcN/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob  /tmp/S78K2owDcN/merge.9.a.bcf /tmp/S78K2owDcN/merge.9.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/S78K2owDcN/merge.9.a.vcf.gz /tmp/S78K2owDcN/merge.9.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/S78K2owDcN/merge.9.a.vcf.gz /tmp/S78K2owDcN/merge.9.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -i AN:sum,AC:sum /tmp/S78K2owDcN/merge.9.a.bcf /tmp/S78K2owDcN/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/S78K2owDcN/merge.9.a.bcf /tmp/S78K2owDcN/merge.9.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m none /tmp/S78K2owDcN/merge.10.a.vcf.gz /tmp/S78K2owDcN/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/S78K2owDcN/merge.10.a.vcf.gz /tmp/S78K2owDcN/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m none /tmp/S78K2owDcN/merge.10.a.bcf /tmp/S78K2owDcN/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m none /tmp/S78K2owDcN/merge.10.a.bcf /tmp/S78K2owDcN/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m both /tmp/S78K2owDcN/merge.10.a.vcf.gz /tmp/S78K2owDcN/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m both /tmp/S78K2owDcN/merge.10.a.vcf.gz /tmp/S78K2owDcN/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m both /tmp/S78K2owDcN/merge.10.a.bcf /tmp/S78K2owDcN/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m both /tmp/S78K2owDcN/merge.10.a.bcf /tmp/S78K2owDcN/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m snp-ins-del /tmp/S78K2owDcN/merge.10.a.vcf.gz /tmp/S78K2owDcN/merge.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m snp-ins-del /tmp/S78K2owDcN/merge.10.a.vcf.gz /tmp/S78K2owDcN/merge.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -m snp-ins-del /tmp/S78K2owDcN/merge.10.a.bcf /tmp/S78K2owDcN/merge.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob -m snp-ins-del /tmp/S78K2owDcN/merge.10.a.bcf /tmp/S78K2owDcN/merge.10.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.mrules.1.a.vcf.gz /tmp/S78K2owDcN/merge.mrules.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.mrules.1.a.vcf.gz /tmp/S78K2owDcN/merge.mrules.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.mrules.1.a.bcf /tmp/S78K2owDcN/merge.mrules.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.mrules.1.a.bcf /tmp/S78K2owDcN/merge.mrules.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/S78K2owDcN/merge.mrules.1.a.vcf.gz /tmp/S78K2owDcN/merge.mrules.1.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/S78K2owDcN/merge.mrules.1.a.vcf.gz /tmp/S78K2owDcN/merge.mrules.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/S78K2owDcN/merge.mrules.1.a.bcf /tmp/S78K2owDcN/merge.mrules.1.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/S78K2owDcN/merge.mrules.1.a.bcf /tmp/S78K2owDcN/merge.mrules.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.5.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.5.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.5.a.bcf /tmp/S78K2owDcN/merge.gvcf.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.5.a.bcf /tmp/S78K2owDcN/merge.gvcf.5.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - --merge none /tmp/S78K2owDcN/merge.gvcf.5.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/S78K2owDcN/merge.gvcf.5.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - --merge none /tmp/S78K2owDcN/merge.gvcf.5.a.bcf /tmp/S78K2owDcN/merge.gvcf.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/S78K2owDcN/merge.gvcf.5.a.bcf /tmp/S78K2owDcN/merge.gvcf.5.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.11.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.11.b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.11.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.11.a.vcf.gz /tmp/S78K2owDcN/merge.gvcf.11.b.vcf.gz /tmp/S78K2owDcN/merge.gvcf.11.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version --gvcf - /tmp/S78K2owDcN/merge.gvcf.11.a.bcf /tmp/S78K2owDcN/merge.gvcf.11.b.bcf /tmp/S78K2owDcN/merge.gvcf.11.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.23/bcftools merge --no-version -Ob --gvcf - /tmp/S78K2owDcN/merge.gvcf.11.a.bcf /tmp/S78K2owDcN/merge.gvcf.11.b.bcf /tmp/S78K2owDcN/merge.gvcf.11.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version | grep -v ^##bcftools_
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' /tmp/S78K2owDcN/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'smpl_count(LAA)==1' /tmp/S78K2owDcN/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'smpl_count(LAA)==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'smpl_count(LAA)==1 & GT="hom"' /tmp/S78K2owDcN/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'smpl_count(LAA)==1 & GT="hom"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'GT="hom" & smpl_count(LAA)==1' /tmp/S78K2owDcN/smpl-count.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/smpl-count.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%CHROM\t%POS\t%GT\t%LAA\t%smpl_count(FMT/LAA)\n]\n' -i'GT="hom" & smpl_count(LAA)==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]="."' /tmp/S78K2owDcN/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]~"\."' /tmp/S78K2owDcN/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]~"\."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!="."' /tmp/S78K2owDcN/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!~"\."' /tmp/S78K2owDcN/query.filter.15.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.15.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%TAG' -i 'TAG[*]!~"\."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM %POS %ID %REF %ALT %QUAL %FILTER \t %INFO/CHROM %INFO/POS %INFO/ID %INFO/REF %INFO/ALT %INFO/QUAL %INFO/FILTER' /tmp/S78K2owDcN/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM %POS %ID %REF %ALT %QUAL %FILTER \t %INFO/CHROM %INFO/POS %INFO/ID %INFO/REF %INFO/ALT %INFO/QUAL %INFO/FILTER'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[ %CHROM] \t [ %POS] \t [ %ID] \t [ %REF] \t [ %ALT] \t [ %QUAL] \t [ %FILTER]' /tmp/S78K2owDcN/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[ %CHROM] \t [ %POS] \t [ %ID] \t [ %REF] \t [ %ALT] \t [ %QUAL] \t [ %FILTER]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '[ %/CHROM] \t [ %/POS] \t [ %/ID] \t [ %/REF] \t [ %/ALT] \t [ %/QUAL] \t [ %/FILTER]' /tmp/S78K2owDcN/query.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[ %/CHROM] \t [ %/POS] \t [ %/ID] \t [ %/REF] \t [ %/ALT] \t [ %/QUAL] \t [ %/FILTER]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' /tmp/S78K2owDcN/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="."' /tmp/S78K2owDcN/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="0|1"' /tmp/S78K2owDcN/query.filter.14.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.14.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS [ %SAMPLE %GT]' -i'GT="0|1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%INFO/AD\t%SUM(INFO/AD)' /tmp/S78K2owDcN/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%INFO/AD\t%SUM(INFO/AD)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t%SUM(FORMAT/AD)' /tmp/S78K2owDcN/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t%SUM(FORMAT/AD)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %SUM(FORMAT/AD)]' /tmp/S78K2owDcN/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %SUM(FORMAT/AD)]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %sSUM(FORMAT/AD)]' /tmp/S78K2owDcN/query.func.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.func.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t[%AD ]\t[ %sSUM(FORMAT/AD)]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"' /tmp/S78K2owDcN/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"' /tmp/S78K2owDcN/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"' /tmp/S78K2owDcN/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/builddir/build/BUILD/bcftools-1.23/test/query.string.2.1.txt' /tmp/S78K2owDcN/query.string.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.string.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/builddir/build/BUILD/bcftools-1.23/test/query.string.2.1.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/builddir/build/BUILD/bcftools-1.23/test/query.string.2.2.txt' /tmp/S78K2owDcN/query.string.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.string.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/builddir/build/BUILD/bcftools-1.23/test/query.string.2.2.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%RSX\t%VKX\n' /tmp/S78K2owDcN/query.variantkey.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.variantkey.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%RSX\t%VKX\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XRI\n' -i'XRI[*]>1111' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XRI\n' -i'XRI[*]>1111'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XRF\n' -i'XRF[*]=2e6' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XRF\n' -i'XRF[*]=2e6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[2]~"H"' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[2]~"H"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]~"H"' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XGS\n' -i'XGS[*]~"H"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'I8=%I8 I16=%I16 I32=%I32 IF=%IF IA8=%IA8 IA16=%IA16 IA32=%IA32 IAF=%IAF IA8=%IA8{1} IA16=%IA16{1} IA32=%IA32{1} IAF=%IAF{1} [ %F8:%F16:%F32:%FF]\n' /tmp/S78K2owDcN/view.vectors.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.vectors.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'I8=%I8 I16=%I16 I32=%I32 IF=%IF IA8=%IA8 IA16=%IA16 IA32=%IA32 IAF=%IAF IA8=%IA8{1} IA16=%IA16{1} IA32=%IA32{1} IAF=%IAF{1} [ %F8:%F16:%F32:%FF]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"' /tmp/S78K2owDcN/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"' /tmp/S78K2owDcN/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"' /tmp/S78K2owDcN/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"' /tmp/S78K2owDcN/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n' /tmp/S78K2owDcN/query.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'IINT="."'  -f'%POS %IINT\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'IINT="."'  -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'IINT!="."' -f'%POS %IINT\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'IINT!="."' -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'IINT!="."' -f'%POS %IINT\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'IINT!="."' -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'IINT="."'  -f'%POS %IINT\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'IINT="."'  -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'IFLT="."'  -f'%POS %IFLT\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'IFLT="."'  -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'IFLT="."'  -f'%POS %IFLT\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'IFLT="."'  -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'ISTR="."'  -f'%POS %ISTR\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'ISTR="."'  -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'ISTR="."'  -f'%POS %ISTR\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'ISTR="."'  -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n' /tmp/S78K2owDcN/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n' /tmp/S78K2owDcN/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n' /tmp/S78K2owDcN/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n' /tmp/S78K2owDcN/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%LINE' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%LINE'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"' /tmp/S78K2owDcN/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"' /tmp/S78K2owDcN/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"' /tmp/S78K2owDcN/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"' /tmp/S78K2owDcN/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"' /tmp/S78K2owDcN/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%A_AF\t%B_AF\t%C_AF\n' -i'A_AF>=0.0001 || B_AF >= 0.0001 || C_AF >= 0.0001' /tmp/S78K2owDcN/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter-missing-floats.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%A_AF\t%B_AF\t%C_AF\n' -i'A_AF>=0.0001 || B_AF >= 0.0001 || C_AF >= 0.0001'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%A_AF\t%B_AF\t%C_AF\n' -e'A_AF>=0.0001 || B_AF >= 0.0001 || C_AF >= 0.0001' /tmp/S78K2owDcN/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter-missing-floats.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%A_AF\t%B_AF\t%C_AF\n' -e'A_AF>=0.0001 || B_AF >= 0.0001 || C_AF >= 0.0001'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n' /tmp/S78K2owDcN/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"' /tmp/S78K2owDcN/query.filter.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2' /tmp/S78K2owDcN/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."' /tmp/S78K2owDcN/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 |  FMT/DP="."' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 |  FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 &  FMT/GQ=589' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 &  FMT/GQ=589'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1' /tmp/S78K2owDcN/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"' /tmp/S78K2owDcN/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" &  GT~"2"' /tmp/S78K2owDcN/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" &  GT~"2"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1' /tmp/S78K2owDcN/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]\n' -i'AD[:0]+AD[:1] > 12' /tmp/S78K2owDcN/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]\n' -i'AD[:0]+AD[:1] > 12'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"' /tmp/S78K2owDcN/query.filter.4.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.4.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/query.56.out' /tmp/S78K2owDcN/view.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/view.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/query.56.out'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01' /tmp/S78K2owDcN/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD[:0],FMT/AD[:1])>0.01' /tmp/S78K2owDcN/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD[:0],FMT/AD[:1])>0.01'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01' /tmp/S78K2owDcN/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10' /tmp/S78K2owDcN/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210' /tmp/S78K2owDcN/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30' /tmp/S78K2owDcN/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2' /tmp/S78K2owDcN/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2' /tmp/S78K2owDcN/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"' /tmp/S78K2owDcN/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B"  && FMT/TC[:GT]=="C"' /tmp/S78K2owDcN/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B"  && FMT/TC[:GT]=="C"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."' /tmp/S78K2owDcN/query.gtidx.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.gtidx.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)' /tmp/S78K2owDcN/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)' /tmp/S78K2owDcN/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)' /tmp/S78K2owDcN/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)' /tmp/S78K2owDcN/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1' /tmp/S78K2owDcN/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1' /tmp/S78K2owDcN/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1' /tmp/S78K2owDcN/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1' /tmp/S78K2owDcN/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT %AD %PBINOM(AD)\n]' -i'phred(binom(FMT/AD))>=0' /tmp/S78K2owDcN/query.pbinom.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.pbinom.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS %SAMPLE %GT %AD %PBINOM(AD)\n]' -i'phred(binom(FMT/AD))>=0'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904' /tmp/S78K2owDcN/query.filter.6.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.6.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6' /tmp/S78K2owDcN/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7' /tmp/S78K2owDcN/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2' /tmp/S78K2owDcN/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75' /tmp/S78K2owDcN/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2' /tmp/S78K2owDcN/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75' /tmp/S78K2owDcN/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2' /tmp/S78K2owDcN/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5' /tmp/S78K2owDcN/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1' /tmp/S78K2owDcN/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.8.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1' /tmp/S78K2owDcN/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.8.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]' /tmp/S78K2owDcN/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]' /tmp/S78K2owDcN/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5' /tmp/S78K2owDcN/query.filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.13.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS  %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2' /tmp/S78K2owDcN/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS  %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS  %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2' /tmp/S78K2owDcN/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS  %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n' /tmp/S78K2owDcN/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0 /tmp/S78K2owDcN/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3 /tmp/S78K2owDcN/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt /tmp/S78K2owDcN/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt /tmp/S78K2owDcN/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S ^/builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt /tmp/S78K2owDcN/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S ^/builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -l -S ^/builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt /tmp/S78K2owDcN/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -l -S ^/builddir/build/BUILD/bcftools-1.23/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.txt /tmp/S78K2owDcN/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.txt /tmp/S78K2owDcN/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -l -S /builddir/build/BUILD/bcftools-1.23/test/query.smpl.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID~"s12"' /tmp/S78K2owDcN/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID~"s12"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="rs123"' /tmp/S78K2owDcN/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="rs123"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="abc"' /tmp/S78K2owDcN/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID="abc"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID=@/builddir/build/BUILD/bcftools-1.23/test/query.filter.id.3.txt' /tmp/S78K2owDcN/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID=@/builddir/build/BUILD/bcftools-1.23/test/query.filter.id.3.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!="abc"' /tmp/S78K2owDcN/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!="abc"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!=@/builddir/build/BUILD/bcftools-1.23/test/query.filter.id.3.txt' /tmp/S78K2owDcN/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%ID\n' -i'ID!=@/builddir/build/BUILD/bcftools-1.23/test/query.filter.id.3.txt'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%FILTER\n' /tmp/S78K2owDcN/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%FILTER\n' /tmp/S78K2owDcN/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A;B"' -f'%FILTER\n' /tmp/S78K2owDcN/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER="A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n' /tmp/S78K2owDcN/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n' /tmp/S78K2owDcN/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n' /tmp/S78K2owDcN/filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'DP%10==2' -f'[ %DP]\n' /tmp/S78K2owDcN/filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'DP%10==2' -f'[ %DP]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n' /tmp/S78K2owDcN/filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/filter.13.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\n]' /tmp/S78K2owDcN/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\n]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\t]\n' /tmp/S78K2owDcN/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'[%CHROM %POS  %SAMPLE %DP %GT\t]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n' /tmp/S78K2owDcN/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]' /tmp/S78K2owDcN/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n' /tmp/S78K2owDcN/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/S78K2owDcN/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/S78K2owDcN/query.header.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.header.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2' /tmp/S78K2owDcN/query.filter-or.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter-or.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 |  DP=2' /tmp/S78K2owDcN/query.filter-or.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/query.filter-or.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 |  DP=2'
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s /tmp/S78K2owDcN/norm.check-ref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.check-ref.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s /tmp/S78K2owDcN/norm.check-ref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.check-ref.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/norm.filter.txt' /tmp/S78K2owDcN/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/norm.filter.txt' /tmp/S78K2owDcN/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -i 'ALT!="C"' /tmp/S78K2owDcN/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -i 'ALT!="C"' /tmp/S78K2owDcN/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/norm.filter.txt' /tmp/S78K2owDcN/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both -i 'ID=@/builddir/build/BUILD/bcftools-1.23/test/norm.filter.txt' /tmp/S78K2owDcN/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both -i 'ALT!="C"' /tmp/S78K2owDcN/norm.filter.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both -i 'ALT!="C"' /tmp/S78K2owDcN/norm.filter.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c e /tmp/S78K2owDcN/norm.6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.2.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c e /tmp/S78K2owDcN/norm.6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.2.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.breakend.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.breakend.1.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.breakend.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.breakend.1.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.sort.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.sort.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - -S lex /tmp/S78K2owDcN/norm.sort.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - -S lex /tmp/S78K2owDcN/norm.sort.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/S78K2owDcN/norm.join-missing-ploidy.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/S78K2owDcN/norm.join-missing-ploidy.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/S78K2owDcN/norm.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/S78K2owDcN/norm.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version  /tmp/S78K2owDcN/norm.symbolic.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version  /tmp/S78K2owDcN/norm.symbolic.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -cx /tmp/S78K2owDcN/norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -cx /tmp/S78K2owDcN/norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/S78K2owDcN/norm.split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/S78K2owDcN/norm.split.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/S78K2owDcN/norm.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/S78K2owDcN/norm.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- --force /tmp/S78K2owDcN/norm.split.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- --force /tmp/S78K2owDcN/norm.split.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/S78K2owDcN/norm.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/S78K2owDcN/norm.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- --keep-sum AD /tmp/S78K2owDcN/norm.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- --keep-sum AD /tmp/S78K2owDcN/norm.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/S78K2owDcN/norm.split.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m- /tmp/S78K2owDcN/norm.split.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/S78K2owDcN/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/S78K2owDcN/norm.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/S78K2owDcN/norm.merge.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/S78K2owDcN/norm.merge.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/S78K2owDcN/norm.merge.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ /tmp/S78K2owDcN/norm.merge.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ -s /tmp/S78K2owDcN/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m+ -s /tmp/S78K2owDcN/norm.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -Nc s /tmp/S78K2owDcN/norm.setref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -Nc s /tmp/S78K2owDcN/norm.setref.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version /tmp/S78K2owDcN/norm.telomere.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version /tmp/S78K2owDcN/norm.telomere.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d snps /tmp/S78K2owDcN/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d snps /tmp/S78K2owDcN/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d indels /tmp/S78K2owDcN/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d indels /tmp/S78K2owDcN/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both /tmp/S78K2owDcN/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both /tmp/S78K2owDcN/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d all /tmp/S78K2owDcN/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d all /tmp/S78K2owDcN/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d none /tmp/S78K2owDcN/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d none /tmp/S78K2owDcN/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/S78K2owDcN/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/S78K2owDcN/norm.rmdup.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d none /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d none /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d indels /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d indels /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d any /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d any /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d both /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d snps /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d snps /tmp/S78K2owDcN/norm.rmdup.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/S78K2owDcN/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.rmdup.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d exact /tmp/S78K2owDcN/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.rmdup.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d all /tmp/S78K2owDcN/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.rmdup.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -d all /tmp/S78K2owDcN/norm.rmdup.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.rmdup.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s -a --old-rec-tag XX /tmp/S78K2owDcN/norm.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.2.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s -a --old-rec-tag XX /tmp/S78K2owDcN/norm.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.2.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/S78K2owDcN/norm.iupac.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.iupac.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/S78K2owDcN/norm.iupac.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.iupac.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/S78K2owDcN/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s --old-rec-tag XX /tmp/S78K2owDcN/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s -i'alt="N"' --old-rec-tag XX /tmp/S78K2owDcN/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.3.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -c s -i'alt="N"' --old-rec-tag XX /tmp/S78K2owDcN/norm.3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.3.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --force
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --force -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/S78K2owDcN/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -a
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/S78K2owDcN/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -a -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/S78K2owDcN/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/S78K2owDcN/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.1.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.2.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . /tmp/S78K2owDcN/atomize.split.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . /tmp/S78K2owDcN/atomize.split.3.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/S78K2owDcN/atomize.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/S78K2owDcN/atomize.split.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/S78K2owDcN/atomize.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/S78K2owDcN/atomize.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/S78K2owDcN/atomize.split.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/S78K2owDcN/norm.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/S78K2owDcN/norm.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/S78K2owDcN/norm.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/S78K2owDcN/norm.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/S78K2owDcN/norm.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/S78K2owDcN/norm.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/S78K2owDcN/norm.5.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - --multi-overlaps . /tmp/S78K2owDcN/norm.5.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/S78K2owDcN/norm.m-any.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/S78K2owDcN/norm.m-any.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/S78K2owDcN/norm.phased-split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/S78K2owDcN/norm.phased-split.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/S78K2owDcN/norm.phased-join.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/S78K2owDcN/norm.phased-join.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/S78K2owDcN/norm.symbolic.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/S78K2owDcN/norm.symbolic.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/S78K2owDcN/norm.symbolic.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/S78K2owDcN/norm.symbolic.2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.symbolic.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/S78K2owDcN/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI /tmp/S78K2owDcN/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -g /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.gff /tmp/S78K2owDcN/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -g /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.gff /tmp/S78K2owDcN/norm.right-align.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.right-align.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/S78K2owDcN/norm.atom-split-norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.atom-split-norm.fa
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/S78K2owDcN/norm.atom-split-norm.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/norm.atom-split-norm.fa -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/S78K2owDcN/norm.string-tags.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m -any /tmp/S78K2owDcN/norm.string-tags.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +indels
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +indels -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +snps
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +snps -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +snps
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +snps -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - /tmp/S78K2owDcN/norm.split.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - -i 'type="snp"' /tmp/S78K2owDcN/norm.split.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m - -i 'type="snp"' /tmp/S78K2owDcN/norm.split.merge.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/S78K2owDcN/norm.merge.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +any /tmp/S78K2owDcN/norm.merge.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/S78K2owDcN/norm.merge.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.23/bcftools norm --no-version -m +both /tmp/S78K2owDcN/norm.merge.4.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -i 'INFO/TAG=@/builddir/build/BUILD/bcftools-1.23/test/filter.string.1.txt' /tmp/S78K2owDcN/filter.string.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -i 'INFO/TAG=@/builddir/build/BUILD/bcftools-1.23/test/filter.string.1.txt' /tmp/S78K2owDcN/filter.string.1.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -i 'FMT/TAG=@/builddir/build/BUILD/bcftools-1.23/test/filter.string.1.txt' /tmp/S78K2owDcN/filter.string.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -i 'FMT/TAG=@/builddir/build/BUILD/bcftools-1.23/test/filter.string.1.txt' /tmp/S78K2owDcN/filter.string.1.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -HA /tmp/S78K2owDcN/merge.gvcf.2.a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -HAA /tmp/S78K2owDcN/merge.gvcf.2.a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r 1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r 1 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r 1:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r 1:1-2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r 1:1,1:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r 1:1,1:2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r 1:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r 1:1-1 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1}
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1} | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1}:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1}:1-2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1}:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1}:1-1 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1} | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}:1-2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}:1-2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}:1-1
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}:1-1 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}-2
.. ok, expected non-zero status

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/weird-chr-names.vcf.gz -r {1:1-1}-2 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok, expected non-zero status

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -aUc1 -C1 -s NA00002 -v snps /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -aUc1 -C1 -s NA00002 -v snps /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -f PASS -Xks NA00003 /tmp/S78K2owDcN/view.vcf.gz -r20,Y
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -f PASS -Xks NA00003 /tmp/S78K2owDcN/view.vcf.gz -r20,Y | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -xs NA00003 /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -xs NA00003 /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -p /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -p /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -P /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -P /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -hm2 -M2 -q0.3 -Q0.7 /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -hm2 -M2 -q0.3 -Q0.7 /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Hu /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -GVsnps /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -GVsnps /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -ne 'INDEL=1 || PV4[0]<0.006' /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -ne 'INDEL=1 || PV4[0]<0.006' /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -s ^NA00003 /tmp/S78K2owDcN/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -s ^NA00003 /tmp/S78K2owDcN/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version  /tmp/S78K2owDcN/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob  /tmp/S78K2owDcN/view.omitgenotypes.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -G /tmp/S78K2owDcN/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -G /tmp/S78K2owDcN/view.omitgenotypes.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -HG /tmp/S78K2owDcN/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -a /tmp/S78K2owDcN/many.alleles.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -a /tmp/S78K2owDcN/many.alleles.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -asA /tmp/S78K2owDcN/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -asA /tmp/S78K2owDcN/view.vectors.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -asB /tmp/S78K2owDcN/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -asB /tmp/S78K2owDcN/view.vectors.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -asA /tmp/S78K2owDcN/view.vectors.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -asA /tmp/S78K2owDcN/view.vectors.2.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:0]="AAAAAA"' /tmp/S78K2owDcN/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:2]="C"' /tmp/S78K2owDcN/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'FMT/FGS[*:4]="EE"' /tmp/S78K2owDcN/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'FMT/FRS[*:1]="BB"' /tmp/S78K2owDcN/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i'TXT0="text"' /tmp/S78K2owDcN/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23/test/view.chrs.tab /tmp/S78K2owDcN/view.chrs.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23/test/view.chrs.tab /tmp/S78K2owDcN/view.chrs.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -i 'POS>=3062917' /tmp/S78K2owDcN/filter.2.vcf.gz 1:3062917-3157410
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -i 'POS>=3062917' /tmp/S78K2owDcN/filter.2.vcf.gz 1:3062917-3157410 | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r 1:10,1:12,1:10 /tmp/S78K2owDcN/idx.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r 1:1172777-1172804,1:1172806-1172808 /tmp/S78K2owDcN/idx.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23/test/idx.2.bed /tmp/S78K2owDcN/idx.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23/test/idx.3.bed /tmp/S78K2owDcN/idx.3.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.23/test/idx.4.bed /tmp/S78K2owDcN/idx.4.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ht 2 /tmp/S78K2owDcN/view-t.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ht 3 /tmp/S78K2owDcN/view-t.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 0 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 1 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 2 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 0 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 1 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 2 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 0 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 1 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 2 /tmp/S78K2owDcN/overlap.vcf.gz 
.. ok

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

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

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

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

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

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

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

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

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

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

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

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

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

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

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -C5:nonmajor /tmp/S78K2owDcN/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -c6:nonmajor /tmp/S78K2owDcN/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -q0.3:major /tmp/S78K2owDcN/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i 'Gene.refGene=="RAD21L1"' /tmp/S78K2owDcN/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i 'Gene.refGene~"NOD"' /tmp/S78K2owDcN/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -i 'LJB2_MutationTaster=="0.291000"' /tmp/S78K2owDcN/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -H -a /tmp/S78K2owDcN/view-a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23/test/view.sites.txt /tmp/S78K2owDcN/view.sites.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23/test/view.sites.txt /tmp/S78K2owDcN/view.sites.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.23/test/view.sites.txt.gz /tmp/S78K2owDcN/view.sites.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.23/test/view.sites.txt.gz /tmp/S78K2owDcN/view.sites.vcf.gz  | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

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

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

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

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

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

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

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

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

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

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

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -s0 /tmp/S78K2owDcN/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ob /tmp/S78K2owDcN/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools head -s0
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -s1 /tmp/S78K2owDcN/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ob /tmp/S78K2owDcN/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools head -s1
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools head -s2 -h2 /tmp/S78K2owDcN/mpileup.2.vcf.gz
.. ok

test_vcf_head2:
	/builddir/build/BUILD/bcftools-1.23/bcftools view --no-version -Ob /tmp/S78K2owDcN/mpileup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools head -s2 -h2
.. ok

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

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -s sample1 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -s ^sample2,sample3 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -s ^sample2,sample3 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -s sample3 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -s sample3 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -s ^sample1,sample2 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -s ^sample1,sample2 /builddir/build/BUILD/bcftools-1.23/test/samples.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.txt -S /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.ped /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.txt -S /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.ped /builddir/build/BUILD/bcftools-1.23/test/call-ploidy.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mg0 /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mg0 /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.4.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.4.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.5.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.5.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.NA19213.NA19129.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -G /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.samples --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -G /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.samples --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.2.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.2.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.3.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.3.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.4.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.4.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.5.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.5.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.6.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.4.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.6.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.7.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.5.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.7.tab.gz -i /builddir/build/BUILD/bcftools-1.23/test/mpileup.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.cals.1.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.cals.1.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.cals.1.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.cals.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mA -C alleles -T /tmp/S78K2owDcN/mpileup.cals.2.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.cals.2.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mA -C alleles -T /tmp/S78K2owDcN/mpileup.cals.2.tab.gz  /builddir/build/BUILD/bcftools-1.23/test/mpileup.cals.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -cv /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -cv /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.ped /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.23/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.23/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.23/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.23/test/call-G.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.23/test/call-G.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/call-G.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.23/test/call-G.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -mv -F AN_POP,AC_POP /builddir/build/BUILD/bcftools-1.23/test/call-G.2.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -mv -F AN_POP,AC_POP /builddir/build/BUILD/bcftools-1.23/test/call-G.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -G /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.txt /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -G /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.txt /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call --no-version -m -G /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.txt -a GP,GQ /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.23/bcftools call -Ob -m -G /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.txt -a GP,GQ /builddir/build/BUILD/bcftools-1.23/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'TXT0="text"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'TXT0="text"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FRS[*:1]="BB"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FRS[*:1]="BB"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:0]="AAAAAA"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:0]="AAAAAA"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:1]="BBB"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:1]="BBB"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FGS[*:4]="EE"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FGS[*:4]="EE"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/STR="XX"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/STR="XX"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S. -e'FMT/FILTER="aaa"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.2.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S. -e'FMT/FILTER="aaa"' /builddir/build/BUILD/bcftools-1.23/test/view.filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -mx -g2 -G2 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -mx -g2 -G2 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'QUAL==59.2 || (INDEL=0 & (FMT/GQ=25 | FMT/DP=10))' -sModified -S. /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'QUAL==59.2 || (INDEL=0 & (FMT/GQ=25 | FMT/DP=10))' -sModified -S. /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -m+ /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -m+ /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -mx /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -mx /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'INFO/DP=19' -s XX -m+x /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'INFO/DP=19' -s XX -m+x /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -m+ /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+ /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -mx /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -mx /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -e'FMT/GT="0/2"' -s XX -m+x /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+x /builddir/build/BUILD/bcftools-1.23/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'FMT/GT="0/0" && AC[*]=2' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'FMT/GT="0/0" && AC[*]=2' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AC[*]=2 && FMT/GT="0/0"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AC[*]=2 && FMT/GT="0/0"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'ALT="."' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'ALT="."' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -i 'FORMAT/TEST3<25' /builddir/build/BUILD/bcftools-1.23/test/filter.4.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -i 'FORMAT/TEST3<25' /builddir/build/BUILD/bcftools-1.23/test/filter.4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -i 'FORMAT/TEST4<25' /builddir/build/BUILD/bcftools-1.23/test/filter.4.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -i 'FORMAT/TEST4<25' /builddir/build/BUILD/bcftools-1.23/test/filter.4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="A"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="A"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="RR"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="RR"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="RA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="RA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="AR"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="AR"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="AA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="AA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="aA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="aA"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="Aa"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="Aa"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="HOM"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="HOM"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="HET"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="HET"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'GT="HAP"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'GT="HAP"' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[:1]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[:1]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[1:]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[1:]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'FR[0:1]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%FR]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'FR[0:1]=11' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%FR]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[*]="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[*]="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[0:0]=="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[0:0]=="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'AD[0:0]!="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'AD[0:0]!="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'QUAL=="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%QUAL\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'QUAL=="."' /builddir/build/BUILD/bcftools-1.23/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\t%QUAL\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'N_PASS(DP>32)=1' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'N_PASS(DP>32)=1' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_PASS(DP>32)=0.5' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_PASS(DP>32)=0.5' /builddir/build/BUILD/bcftools-1.23/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_MISSING>=1/5' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_MISSING>=1/5' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_MISSING>=0.2' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_MISSING>=0.2' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_PASS(GT=="mis")>=1/5' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_PASS(GT=="mis")>=1/5' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i'F_PASS(GT=="mis")>=0.2' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i'F_PASS(GT=="mis")>=0.2' /builddir/build/BUILD/bcftools-1.23/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -mx -s + -g2:mnp,indel,other /builddir/build/BUILD/bcftools-1.23/test/filter.7.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -mx -s + -g2:mnp,indel,other /builddir/build/BUILD/bcftools-1.23/test/filter.7.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'FORMAT/AO==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'FORMAT/AO==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MAX(FORMAT/AO[0:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MAX(FORMAT/AO[0:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'AVG(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'AVG(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'MEDIAN(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'MEDIAN(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'STDEV(FORMAT/AO[0:])=0.5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'STDEV(FORMAT/AO[0:])=0.5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'SUM(FORMAT/AO[0:])=7' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'SUM(FORMAT/AO[0:])=7' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'SMPL_MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'SMPL_MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'sMIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'sMIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'ABS(sAVG(FORMAT/AO)-3.66666)<1e-5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(sAVG(FORMAT/AO)-3.66666)<1e-5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'sMEDIAN(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'sMEDIAN(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'ABS(sSTDEV(FORMAT/AO)-1.2472191)<1e-5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(sSTDEV(FORMAT/AO)-1.2472191)<1e-5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'sSUM(FORMAT/AO)==11' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'sSUM(FORMAT/AO)==11' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'QUAL/FMT/AD==55' /builddir/build/BUILD/bcftools-1.23/test/filter.9.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'QUAL/FMT/AD==55' /builddir/build/BUILD/bcftools-1.23/test/filter.9.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'QUAL/INFO/AD==10' /builddir/build/BUILD/bcftools-1.23/test/filter.9.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'QUAL/INFO/AD==10' /builddir/build/BUILD/bcftools-1.23/test/filter.9.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'ABS(SMPL_MAX(FORMAT/AO))=5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(SMPL_MAX(FORMAT/AO))=5' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'PHRED(AO[1:])>-4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'PHRED(AO[1:])>-4' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -S . -e 'ABS(AO[1:])==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -S . -e 'ABS(AO[1:])==2' /builddir/build/BUILD/bcftools-1.23/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'sum(AD[*]) > FORMAT/DP' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'sum(AD[*]) > FORMAT/DP' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'FORMAT/DP < sum(AD[*])' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'FORMAT/DP < sum(AD[*])' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'sum(AD[*]) < FORMAT/DP' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'sum(AD[*]) < FORMAT/DP' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -i 'FORMAT/DP > sum(AD[*])' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob -i 'FORMAT/DP > sum(AD[*])' /builddir/build/BUILD/bcftools-1.23/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 0 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 0 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 1 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 1 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 2 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 2 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter --soft-filter xxx --mask ^2:1005-1008 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.23/bcftools filter -Ob --soft-filter xxx --mask ^2:1005-1008 /builddir/build/BUILD/bcftools-1.23/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23/bcftools sort -m 0 /builddir/build/BUILD/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23/bcftools sort -Ob -m 0 /builddir/build/BUILD/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23/bcftools sort -m 1000 /builddir/build/BUILD/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.23/bcftools sort -Ob -m 1000 /builddir/build/BUILD/bcftools-1.23/test/sort.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | /builddir/build/BUILD/bcftools-1.23/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /builddir/build/BUILD/bcftools-1.23/test/regions.tab /tmp/S78K2owDcN/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /builddir/build/BUILD/bcftools-1.23/test/regions.tab
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /builddir/build/BUILD/bcftools-1.23/test/regions.tab /tmp/S78K2owDcN/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/S78K2owDcN/regions.tab.gz /tmp/S78K2owDcN/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/S78K2owDcN/regions.tab.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/S78K2owDcN/regions.tab.gz /tmp/S78K2owDcN/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/S78K2owDcN/regions.bed /tmp/S78K2owDcN/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/S78K2owDcN/regions.bed
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/S78K2owDcN/regions.bed /tmp/S78K2owDcN/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/S78K2owDcN/regions.bed.gz /tmp/S78K2owDcN/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/S78K2owDcN/regions.bed.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/S78K2owDcN/regions.bed.gz /tmp/S78K2owDcN/regions.vcf.gz
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots36.bed.gz  -c CHROM,POS,-,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots36.bed.gz  -c CHROM,POS,-,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots36.bed.gz  -c CHROM,BEG,END,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots36.bed.gz  -c CHROM,BEG,END,~X,-,AF,-,-,- -i'SVTYPE={X}' -k /builddir/build/BUILD/bcftools-1.23/test/annotate36.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots35.vcf.gz  -c CHROM,POS,~ID,REF,ALT,INFO/src /tmp/S78K2owDcN/annotate35.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots35.vcf.gz  -c CHROM,POS,~ID,REF,ALT,INFO/src /tmp/S78K2owDcN/annotate35.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.escape.1.tab.gz  -c CHROM,POS,ISTR,FMT/FSTR /builddir/build/BUILD/bcftools-1.23/test/annotate.escape.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.escape.1.tab.gz  -c CHROM,POS,ISTR,FMT/FSTR /builddir/build/BUILD/bcftools-1.23/test/annotate.escape.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.match.1.tab.gz  -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.match.1.tab.gz  -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.match.1.tab.gz  -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /builddir/build/BUILD/bcftools-1.23/test/annotate.match.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,POS,-,T_STR /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,POS,-,T_STR /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,FROM,TO,T_STR /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate.hdr -c CHROM,FROM,TO,T_STR /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/S78K2owDcN/annotate.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/S78K2owDcN/annotate.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -x ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL /builddir/build/BUILD/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -x ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL /builddir/build/BUILD/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -x FORMAT /builddir/build/BUILD/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -x FORMAT /builddir/build/BUILD/bcftools-1.23/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots4.vcf.gz  -c +INFO /tmp/S78K2owDcN/annotate4.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots4.vcf.gz  -c +INFO /tmp/S78K2owDcN/annotate4.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots4.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /builddir/build/BUILD/bcftools-1.23/test/annotate4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots4.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /builddir/build/BUILD/bcftools-1.23/test/annotate4.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots10.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /builddir/build/BUILD/bcftools-1.23/test/annotate10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots10.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /builddir/build/BUILD/bcftools-1.23/test/annotate10.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots11.tab.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /builddir/build/BUILD/bcftools-1.23/test/annotate2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots11.tab.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /builddir/build/BUILD/bcftools-1.23/test/annotate2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots11.vcf.gz  -c FMT /tmp/S78K2owDcN/annotate11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots11.vcf.gz  -c FMT /tmp/S78K2owDcN/annotate11.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/S78K2owDcN/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /builddir/build/BUILD/bcftools-1.23/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -x FILTER/XX,INFO/XX --force /builddir/build/BUILD/bcftools-1.23/test/annotate14.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -x FILTER/XX,INFO/XX --force /builddir/build/BUILD/bcftools-1.23/test/annotate14.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.23/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate15.tab.gz  -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR -H '##FORMAT=<ID=FOO,Number=1,Type=String,Description="Some description">' -H '##INFO=<ID=BAR,Number=1,Type=Integer,Description="Some description">' /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate15.tab.gz  -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR -H '##FORMAT=<ID=FOO,Number=1,Type=String,Description="Some description">' -H '##INFO=<ID=BAR,Number=1,Type=Integer,Description="Some description">' /builddir/build/BUILD/bcftools-1.23/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -x FILTER /builddir/build/BUILD/bcftools-1.23/test/annotate16.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -x FILTER /builddir/build/BUILD/bcftools-1.23/test/annotate16.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate17.3.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate17.3.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.23/test/annotate17.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate18.1.tab.gz  -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /builddir/build/BUILD/bcftools-1.23/test/annotate18.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate18.1.tab.gz  -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /builddir/build/BUILD/bcftools-1.23/test/annotate18.1.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate18.2.tab.gz  -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /builddir/build/BUILD/bcftools-1.23/test/annotate18.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate18.2.tab.gz  -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /builddir/build/BUILD/bcftools-1.23/test/annotate18.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -c INFO/FILTER:=FILTER /builddir/build/BUILD/bcftools-1.23/test/annotate19.dst.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -c INFO/FILTER:=FILTER /builddir/build/BUILD/bcftools-1.23/test/annotate19.dst.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/FILTER:=FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER,FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c INFO/FILTER:=./FILTER,FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=./FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=./FILTER /tmp/S78K2owDcN/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate20.src.vcf.gz  -c  FMT/GT /tmp/S78K2owDcN/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate20.src.vcf.gz  -c  FMT/GT /tmp/S78K2owDcN/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate20.src.vcf.gz  -c +FMT/GT /tmp/S78K2owDcN/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate20.src.vcf.gz  -c +FMT/GT /tmp/S78K2owDcN/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate20.src.vcf.gz  -c -FMT/GT /tmp/S78K2owDcN/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate20.src.vcf.gz  -c -FMT/GT /tmp/S78K2owDcN/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.multi.tab.gz  -c CHROM,POS,REF,ALT,ANN -l ANN:append /builddir/build/BUILD/bcftools-1.23/test/annotate.multi.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.multi.tab.gz  -c CHROM,POS,REF,ALT,ANN -l ANN:append /builddir/build/BUILD/bcftools-1.23/test/annotate.multi.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.missing-append.tab.gz  -c CHROM,POS,REF,ALT,STR,INT,FLT -l STR:append-missing,INT:append-missing,FLT:append-missing /builddir/build/BUILD/bcftools-1.23/test/annotate.missing-append.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.missing-append.tab.gz  -c CHROM,POS,REF,ALT,STR,INT,FLT -l STR:append-missing,INT:append-missing,FLT:append-missing /builddir/build/BUILD/bcftools-1.23/test/annotate.missing-append.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots9.tab.gz  -c CHROM,POS,REF,ALT,+ID /builddir/build/BUILD/bcftools-1.23/test/annotate9.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots9.tab.gz  -c CHROM,POS,REF,ALT,+ID /builddir/build/BUILD/bcftools-1.23/test/annotate9.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   --rename-annots /builddir/build/BUILD/bcftools-1.23/test/annotate21.txt /builddir/build/BUILD/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   --rename-annots /builddir/build/BUILD/bcftools-1.23/test/annotate21.txt /builddir/build/BUILD/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -c XX:=FORMAT/X-X,YY:=FORMAT/Y-Y,AA:=FORMAT/A-A,AA:=INFO/A-A,BB:=INFO/B-B,XX:=INFO/X-X,YY:=INFO/Y-Y,fltA:=FILTER/flt-A,fltB:=FILTER/flt-B,fltX:=FILTER/flt-X,fltY:=FILTER/flt-Y /builddir/build/BUILD/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -c XX:=FORMAT/X-X,YY:=FORMAT/Y-Y,AA:=FORMAT/A-A,AA:=INFO/A-A,BB:=INFO/B-B,XX:=INFO/X-X,YY:=INFO/Y-Y,fltA:=FILTER/flt-A,fltB:=FILTER/flt-B,fltX:=FILTER/flt-X,fltY:=FILTER/flt-Y /builddir/build/BUILD/bcftools-1.23/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/S78K2owDcN/annotate22.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/S78K2owDcN/annotate22.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate23.tab.gz  -c CHROM,POS,~ID,REF,ALT,INFO/END /builddir/build/BUILD/bcftools-1.23/test/annotate23.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate23.tab.gz  -c CHROM,POS,~ID,REF,ALT,INFO/END /builddir/build/BUILD/bcftools-1.23/test/annotate23.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate24.src.vcf.gz  -c XX /tmp/S78K2owDcN/annotate24.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate24.src.vcf.gz  -c XX /tmp/S78K2owDcN/annotate24.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate25.tab.gz  -c CHROM,POS,ID,REF,ALT,~INFO/END /builddir/build/BUILD/bcftools-1.23/test/annotate25.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate25.tab.gz  -c CHROM,POS,ID,REF,ALT,~INFO/END /builddir/build/BUILD/bcftools-1.23/test/annotate25.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate26.tab.gz  -c CHROM,POS,-POS /builddir/build/BUILD/bcftools-1.23/test/annotate26.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate26.tab.gz  -c CHROM,POS,-POS /builddir/build/BUILD/bcftools-1.23/test/annotate26.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /builddir/build/BUILD/bcftools-1.23/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique /builddir/build/BUILD/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique /builddir/build/BUILD/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 -m XXX /builddir/build/BUILD/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 -m XXX /builddir/build/BUILD/bcftools-1.23/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots.id.vcf.gz  -c ALT /tmp/S78K2owDcN/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots.id.vcf.gz  -c ALT /tmp/S78K2owDcN/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots.id.vcf.gz  -c +ALT /tmp/S78K2owDcN/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots.id.vcf.gz  -c +ALT /tmp/S78K2owDcN/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots.id.2.vcf.gz  --pair-logic some -c +ID /tmp/S78K2owDcN/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots.id.2.vcf.gz  --pair-logic some -c +ID /tmp/S78K2owDcN/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots.id.2.vcf.gz  --pair-logic any -c +ID /tmp/S78K2owDcN/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots.id.2.vcf.gz  --pair-logic any -c +ID /tmp/S78K2owDcN/annotate.id.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annotate27.tab.gz  -c CHROM,POS,REF,ALT,EVIDENCE /builddir/build/BUILD/bcftools-1.23/test/annotate27.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annotate27.tab.gz  -c CHROM,POS,REF,ALT,EVIDENCE /builddir/build/BUILD/bcftools-1.23/test/annotate27.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots28.tab.gz  -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /builddir/build/BUILD/bcftools-1.23/test/annotate28.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate   -m XXX /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob   -m XXX /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots34.tab.gz  -c CHROM,FROM,TO,INFO/END -H '##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate in reference for SV">' /builddir/build/BUILD/bcftools-1.23/test/annotate34.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots34.tab.gz  -c CHROM,FROM,TO,INFO/END -H '##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate in reference for SV">' /builddir/build/BUILD/bcftools-1.23/test/annotate34.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -a /tmp/S78K2owDcN/annots-mark.bed.gz  -c CHROM,FROM,TO -m TAG /builddir/build/BUILD/bcftools-1.23/test/annots-mark.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate -Ob -a /tmp/S78K2owDcN/annots-mark.bed.gz  -c CHROM,FROM,TO -m TAG /builddir/build/BUILD/bcftools-1.23/test/annots-mark.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/S78K2owDcN/checkploidy.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/S78K2owDcN/checkploidy.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/S78K2owDcN/checkploidy.2.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/S78K2owDcN/checkploidy.2.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/S78K2owDcN/checkploidy.2.vcf.gz -- -m | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +check-ploidy --no-version /tmp/S78K2owDcN/checkploidy.2.bcf -- -m | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +missing2ref --no-version /tmp/S78K2owDcN/plugin1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +missing2ref --no-version /tmp/S78K2owDcN/plugin1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/plugin1.vcf.gz -- -t . -n 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/plugin1.bcf -- -t . -n 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.vcf.gz -- -t q -n 0 -i 'GT~"." && FMT/DP=30 && GQ=150' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.bcf -- -t q -n 0 -i 'GT~"." && FMT/DP=30 && GQ=150' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.2.vcf.gz -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt]="het"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.2.bcf -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt]="het"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.2.vcf.gz -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt]="het" & binom(AD[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt])<0.1' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.2.bcf -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt]="het" & binom(AD[@/builddir/build/BUILD/bcftools-1.23/test/setGT.samples.txt])<0.1' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.2.vcf.gz -- -t a -n i | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.2.bcf -- -t a -n i | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.vcf.gz -- -t a -n pM | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.bcf -- -t a -n pM | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.vcf.gz -- -t a -n pm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.bcf -- -t a -n pm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.vcf.gz -- -t a -n c:1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.bcf -- -t a -n c:1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.vcf.gz -- -t a -n c:"1|1" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.bcf -- -t a -n c:"1|1" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.vcf.gz -- -t a -n c:"m|M" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.bcf -- -t a -n c:"m|M" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.vcf.gz -- -t a -n c:0/1/1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.bcf -- -t a -n c:0/1/1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.vcf.gz -i 'GT="mis"' -- -t . -nc:././. | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.3.bcf -i 'GT="mis"' -- -t . -nc:././. | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.4.vcf.gz -- -t q -n . -e 'FMT/DP>90' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.4.bcf -- -t q -n . -e 'FMT/DP>90' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.4.vcf.gz -- -t q -n . -e 'FMT/DP>100' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.4.bcf -- -t q -n . -e 'FMT/DP>100' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.5.vcf.gz -- -t a -n X | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] AD should be declared as Number=R
[W::bcf_hdr_check_sanity] AD should be declared as Number=R
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.5.bcf -- -t a -n X | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.5.vcf.gz -- -t a -n c:0/X/X | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] AD should be declared as Number=R
[W::bcf_hdr_check_sanity] AD should be declared as Number=R
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.5.bcf -- -t a -n c:0/X/X | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.6.vcf.gz -- -t ./x -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.6.bcf -- -t ./x -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.6.vcf.gz -- -t . -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.6.bcf -- -t . -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.6.vcf.gz -- -t r:0.5 -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +setGT --no-version /tmp/S78K2owDcN/setGT.6.bcf -- -t r:0.5 -n . | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-AN-AC --no-version /tmp/S78K2owDcN/plugin1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-AN-AC --no-version /tmp/S78K2owDcN/plugin1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/S78K2owDcN/dosage.vcf.gz -- -t PL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/S78K2owDcN/dosage.bcf -- -t PL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/S78K2owDcN/dosage.vcf.gz -- -t GL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/S78K2owDcN/dosage.bcf -- -t GL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/S78K2owDcN/dosage.vcf.gz -- -t GT | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +dosage /tmp/S78K2owDcN/dosage.bcf -- -t GT | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixploidy --no-version /tmp/S78K2owDcN/fixploidy.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23/test/fixploidy.samples -p /builddir/build/BUILD/bcftools-1.23/test/fixploidy.ploidy | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixploidy --no-version /tmp/S78K2owDcN/fixploidy.bcf -- -s /builddir/build/BUILD/bcftools-1.23/test/fixploidy.samples -p /builddir/build/BUILD/bcftools-1.23/test/fixploidy.ploidy | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +guess-ploidy /tmp/S78K2owDcN/view.PL.vcf.gz -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +guess-ploidy /tmp/S78K2owDcN/view.PL.bcf -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +guess-ploidy /tmp/S78K2owDcN/view.GL.vcf.gz -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +guess-ploidy /tmp/S78K2owDcN/view.GL.bcf -v -rX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/view.GL.vcf.gz -- -r --gl-to-pl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/view.GL.bcf -- -r --gl-to-pl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/view.GL.vcf.gz -- --gl-to-gp | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/view.GL.bcf -- --gl-to-gp | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/view.GP.vcf.gz -- -r --gp-to-gt -t 0.2 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/view.GP.bcf -- -r --gp-to-gt -t 0.2 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/tag2tag.LPL.1.vcf.gz -- --LXX-to-XX | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/tag2tag.LPL.1.bcf -- --LXX-to-XX | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/tag2tag.LPL.1.vcf.gz -- --LXX-to-XX -r | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/tag2tag.LPL.1.bcf -- --LXX-to-XX -r | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/tag2tag.LPL.1.vcf.gz -- --LXX-to-XX -r -d AD:0,PL:255 -s 3 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +tag2tag --no-version /tmp/S78K2owDcN/tag2tag.LPL.1.bcf -- --LXX-to-XX -r -d AD:0,PL:255 -s 3 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +add-variantkey /tmp/S78K2owDcN/query.variantkey.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +add-variantkey /tmp/S78K2owDcN/query.variantkey.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variantkey-hex /tmp/S78K2owDcN/query.variantkey.vcf.gz test/ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variantkey-hex /tmp/S78K2owDcN/query.variantkey.bcf test/ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +allele-length /tmp/S78K2owDcN/query.nucleotide.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +allele-length /tmp/S78K2owDcN/query.nucleotide.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/query.func.1.vcf.gz -- -t 'FMT/AB:1=float(FMT/AD[*:0] / ssum(FMT/AD[*]))' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/query.func.1.bcf -- -t 'FMT/AB:1=float(FMT/AD[*:0] / ssum(FMT/AD[*]))' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'F_MISSING' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'F_MISSING' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'F_MISSING:1=F_PASS(GT="mis")' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'F_MISSING:1=F_PASS(GT="mis")' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fmissing.vcf.gz -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'N_MISSING:1=int(N_PASS(GT="mis"))' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fmissing.bcf -- -S /builddir/build/BUILD/bcftools-1.23/test/fmissing.txt -t 'N_MISSING:1=int(N_PASS(GT="mis"))' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.vcf.gz -- -t 'FT:1=phred(fisher(INFO/DP4))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.bcf -- -t 'FT:1=phred(fisher(INFO/DP4))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.vcf.gz -- -t 'FT:1=phred(fisher(INFO/ADF[0,2],INFO/ADR[0,2]))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.bcf -- -t 'FT:1=phred(fisher(INFO/ADF[0,2],INFO/ADR[0,2]))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.vcf.gz -- -t 'FT:1=phred(fisher(INFO/ADF,INFO/ADR))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.bcf -- -t 'FT:1=phred(fisher(INFO/ADF,INFO/ADR))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.vcf.gz -- -t 'FMT/FT:1=phred(fisher(FMT/DP4))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.bcf -- -t 'FMT/FT:1=phred(fisher(FMT/DP4))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.vcf.gz -- -t 'FMT/FT:1=phred(fisher(FORMAT/ADF,FORMAT/ADR))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.bcf -- -t 'FMT/FT:1=phred(fisher(FORMAT/ADF,FORMAT/ADR))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.vcf.gz -- -t 'FMT/FT:1=phred(fisher(FORMAT/ADF[:0,1],FORMAT/ADR[:0,1]))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fisher.bcf -- -t 'FMT/FT:1=phred(fisher(FORMAT/ADF[:0,1],FORMAT/ADR[:0,1]))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/merge.a.vcf.gz -- -t AN,AC,AC_Hom,AC_Het,AC_Hemi | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/merge.a.bcf -- -t AN,AC,AC_Hom,AC_Het,AC_Hemi | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/view.vcf.gz -- -t AC,AN,AF,MAF,NS | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/view.bcf -- -t AC,AN,AF,MAF,NS | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/view.vcf.gz -- -t AC -S /builddir/build/BUILD/bcftools-1.23/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/view.bcf -- -t AC -S /builddir/build/BUILD/bcftools-1.23/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/view.vcf.gz -- -t "DP:1=int(sum(FORMAT/DP))" -S /builddir/build/BUILD/bcftools-1.23/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/view.bcf -- -t "DP:1=int(sum(FORMAT/DP))" -S /builddir/build/BUILD/bcftools-1.23/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/many-alts.vcf.gz -- -t AN,AC | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/many-alts.bcf -- -t AN,AC | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-hemi.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-hemi.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-hemi.vcf.gz -- -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-hemi.bcf -- -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-hwe.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-hwe.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-hwe.vcf.gz -- -t 'XX:1=F_PASS(GT="alt")' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-hwe.bcf -- -t 'XX:1=F_PASS(GT="alt")' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-rw.vcf.gz -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-rw.bcf -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AN0.vcf.gz -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AN0.bcf -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-VAF.vcf.gz -- -t VAF,VAF1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-VAF.bcf -- -t VAF,VAF1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.vcf.gz -- -t 'INFO/DP:1=int(sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.bcf -- -t 'INFO/DP:1=int(sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.vcf.gz -- -t 'INFO/DP:1=int(sum(INFO/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.bcf -- -t 'INFO/DP:1=int(sum(INFO/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.vcf.gz -- -t 'FORMAT/DP:1=int(smpl_sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.bcf -- -t 'FORMAT/DP:1=int(smpl_sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.vcf.gz -- -t 'XX=N_PASS(FMT/AD[:0]<=10)','YY=N_PASS(FMT/AD[:0]>10)' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.bcf -- -t 'XX=N_PASS(FMT/AD[:0]<=10)','YY=N_PASS(FMT/AD[:0]>10)' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.vcf.gz -- -t 'good=N_PASS(binom(FMT/AD[:0],FMT/AD[:1])>=1e-5)','bad=N_PASS(binom(FMT/AD[:0],FMT/AD[:1])<1e-5)' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-tags --no-version /tmp/S78K2owDcN/fill-tags-AD.bcf -- -t 'good=N_PASS(binom(FMT/AD[:0],FMT/AD[:1])>=1e-5)','bad=N_PASS(binom(FMT/AD[:0],FMT/AD[:1])<1e-5)' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.vcf.gz  | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.bcf  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.vcf.gz -- -H | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.bcf -- -H | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.vcf.gz -- -Hm | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.bcf -- -Hm | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.vcf.gz -- -Hmv | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.bcf -- -Hmv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.vcf.gz -- -Hv | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.bcf -- -Hv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.vcf.gz -- -m | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.bcf -- -m | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.vcf.gz -- -mv | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.bcf -- -mv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.vcf.gz -- -v | grep -v bcftools | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTisec /tmp/S78K2owDcN/view.bcf -- -v | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-switch-rate /tmp/S78K2owDcN/trio.vcf.gz -- -p /builddir/build/BUILD/bcftools-1.23/test/trio.ped | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-switch-rate /tmp/S78K2owDcN/trio.bcf -- -p /builddir/build/BUILD/bcftools-1.23/test/trio.ped | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-stats /tmp/S78K2owDcN/trio-stats.vcf.gz -a 1 -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-stats /tmp/S78K2owDcN/trio-stats.bcf -a 1 -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-stats /tmp/S78K2owDcN/trio-stats.vcf.gz -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-stats /tmp/S78K2owDcN/trio-stats.bcf -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +smpl-stats /tmp/S78K2owDcN/indel-stats.vcf.gz | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +smpl-stats /tmp/S78K2owDcN/indel-stats.bcf | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/S78K2owDcN/indel-stats.vcf.gz | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/S78K2owDcN/indel-stats.bcf | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/S78K2owDcN/indel-stats.vcf.gz  -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/S78K2owDcN/indel-stats.bcf  -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/S78K2owDcN/indel-stats.vcf.gz  -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.2.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +indel-stats /tmp/S78K2owDcN/indel-stats.bcf  -p /builddir/build/BUILD/bcftools-1.23/test/trio-stats.2.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/S78K2owDcN/ad-bias.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/S78K2owDcN/ad-bias.bcf -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/S78K2owDcN/ad-bias.2.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/S78K2owDcN/ad-bias.2.bcf -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/S78K2owDcN/ad-bias.vcf.gz --no-version -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/S78K2owDcN/ad-bias.bcf --no-version -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/S78K2owDcN/ad-bias.2.vcf.gz --no-version -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +ad-bias /tmp/S78K2owDcN/ad-bias.2.bcf --no-version -- -s /builddir/build/BUILD/bcftools-1.23/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +af-dist /tmp/S78K2owDcN/af-dist.vcf.gz  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +af-dist /tmp/S78K2owDcN/af-dist.bcf  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -i /tmp/S78K2owDcN/fixref.2b.vcf.gz | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -i /tmp/S78K2owDcN/fixref.2b.vcf.gz | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.3.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/fixref.3.fa -m top | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.3.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/fixref.3.fa -m top | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m ref-alt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m ref-alt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m flip | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m flip | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m flip-all | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m flip-all | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m swap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fixref /tmp/S78K2owDcN/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -m swap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/S78K2owDcN/aa.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/aa.fa -c AA -h /builddir/build/BUILD/bcftools-1.23/test/aa.hdr -i 'TYPE="snp"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/S78K2owDcN/aa.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/aa.fa -c AA -h /builddir/build/BUILD/bcftools-1.23/test/aa.hdr -i 'TYPE="snp"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/S78K2owDcN/aa.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/aa.fa -c REF -N | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/S78K2owDcN/aa.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/aa.fa -c REF -N | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/S78K2owDcN/ref.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -c REF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +fill-from-fasta /tmp/S78K2owDcN/ref.bcf -- -f /builddir/build/BUILD/bcftools-1.23/test/norm.fa -c REF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/S78K2owDcN/view.vcf.gz -- -s NA00001 | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/S78K2owDcN/view.bcf -- -s NA00001 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/S78K2owDcN/view.vcf.gz -- -s NA00001,NA00002 | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/S78K2owDcN/view.bcf -- -s NA00001,NA00002 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/S78K2owDcN/view.vcf.gz -- -s NA00001,NA00002,NA00003 | grep -v ^##bcftools_
.. ok

[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
[W::bcf_hdr_check_sanity] MQ should be declared as Type=Float
test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +GTsubset --no-version /tmp/S78K2owDcN/view.bcf -- -s NA00001,NA00002,NA00003 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.vcf.gz -p child1,dad1,mom1 -md | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.bcf -p child1,dad1,mom1 -md | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.vcf.gz -p child1,dad1,mom1 -mg | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.bcf -p child1,dad1,mom1 -mg | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.vcf.gz -p child1,dad1,mom1 -me | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.bcf -p child1,dad1,mom1 -me | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.vcf.gz -p child1,dad1,mom1 -ma | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.bcf -p child1,dad1,mom1 -ma | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.vcf.gz -p child1,dad1,mom1 -mm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.bcf -p child1,dad1,mom1 -mm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.vcf.gz -p child1,dad1,mom1 | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +mendelian2 /tmp/S78K2owDcN/mendelian.bcf -p child1,dad1,mom1 | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.vcf.gz -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 a,b -1 c | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.bcf -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 a,b -1 c | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.vcf.gz -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 /builddir/build/BUILD/bcftools-1.23/test/contrast0.txt -1 /builddir/build/BUILD/bcftools-1.23/test/contrast1.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.bcf -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 /builddir/build/BUILD/bcftools-1.23/test/contrast0.txt -1 /builddir/build/BUILD/bcftools-1.23/test/contrast1.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.vcf.gz -a NASSOC -0 a,b,c -1 d --force-samples | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.bcf -a NASSOC -0 a,b,c -1 d --force-samples | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.1.vcf.gz -a NOVELAL,NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.1.bcf -a NOVELAL,NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.1.vcf.gz -a NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +contrast /tmp/S78K2owDcN/contrast.1.bcf -a NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.1.vcf.gz -p proband,father,mother --ppl --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.1.bcf -p proband,father,mother --ppl --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.2.vcf.gz -p proband,father,mother --ppl --dnm-tag DNM:log --force-AD | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.2.bcf -p proband,father,mother --ppl --dnm-tag DNM:log --force-AD | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother --use-DNG | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.4.bcf -p proband,father,mother --use-DNG | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother           | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.4.bcf -p proband,father,mother           | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.4.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.4.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.5.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.5.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.5.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.5.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.6.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.6.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.6.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\t[\t%VA]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.6.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\t[\t%VA]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.7.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.7.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.7.vcf.gz -p proband,father,mother        --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.7.bcf -p proband,father,mother        --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.8.vcf.gz -p proband,father,mother  | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.8.bcf -p proband,father,mother  | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.9.vcf.gz -p 1X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.9.bcf -p 1X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.9.vcf.gz -p 2X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.9.bcf -p 2X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.10.vcf.gz -p proband,father,mother --with-pAD | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM][\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.10.bcf -p proband,father,mother --with-pAD | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[\t%DNM][\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.11.vcf.gz -p 1X:proband,father,mother | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM:%POS  DNM=[%DNM ]\tAD=[%AD ]\tQS=[%QS ]\tVAF=[%VAF ]\tVA=[%VA ]' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.11.bcf -p 1X:proband,father,mother | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM:%POS  DNM=[%DNM ]\tAD=[%AD ]\tQS=[%QS ]\tVAF=[%VAF ]\tVA=[%VA ]' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.11.vcf.gz -p 1X:proband,father,mother --strictly-novel | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM:%POS  DNM=[%DNM ]\tAD=[%AD ]\tQS=[%QS ]\tVAF=[%VAF ]\tVA=[%VA ]' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +trio-dnm2 /tmp/S78K2owDcN/trio-dnm/trio-dnm.11.bcf -p 1X:proband,father,mother --strictly-novel | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM:%POS  DNM=[%DNM ]\tAD=[%AD ]\tQS=[%QS ]\tVAF=[%VAF ]\tVA=[%VA ]' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/S78K2owDcN/gvcfz.vcf.gz -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%END[\t%GT][\t%DP][\t%GQ][\t%RGQ]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/S78K2owDcN/gvcfz.bcf -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%END[\t%GT][\t%DP][\t%GQ][\t%RGQ]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/S78K2owDcN/gvcfz.vcf.gz -g 'PASS:GQ>10; FLT:-' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP][\t%GQ][\t%RGQ]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/S78K2owDcN/gvcfz.bcf -g 'PASS:GQ>10; FLT:-' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP][\t%GQ][\t%RGQ]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/S78K2owDcN/gvcfz.2.vcf.gz -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +gvcfz /tmp/S78K2owDcN/gvcfz.2.bcf -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.vcf.gz -m overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.bcf -m overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.vcf.gz -m overlap -M overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.bcf -m overlap -M overlap | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.vcf.gz -m overlap -O t | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.bcf -m overlap -O t | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.vcf.gz -m overlap --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.bcf -m overlap --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.vcf.gz -m dup -M DUP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.bcf -m dup -M DUP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.vcf.gz -m dup -M unique --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.1.bcf -m dup -M unique --reverse | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.2.vcf.gz -m 'min(QUAL)' -M rmme | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.2.bcf -m 'min(QUAL)' -M rmme | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.3.vcf.gz -m 'min(QUAL)' -M rmme | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.3.bcf -m 'min(QUAL)' -M rmme | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.3.vcf.gz -m 'min(QUAL)' -M rmme --missing 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.3.bcf -m 'min(QUAL)' -M rmme --missing 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.3.vcf.gz -m 'min(QUAL)' -M rmme --missing DP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +remove-overlaps /tmp/S78K2owDcN/remove-overlaps.3.bcf -m 'min(QUAL)' -M rmme --missing DP | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -s worst:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -s worst:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -c Consequence -s worst:missense+:worst | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -s worst:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -s worst:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -s primary:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -s primary:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -s CANONICAL=YES:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -s CANONICAL=YES:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -s primary:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -s primary:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -s CANONICAL=YES:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -s CANONICAL=YES:missense+:worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -s primary:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -s primary:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -s CANONICAL=YES:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -s CANONICAL=YES:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.2.vcf.gz -s worst -f'%POS\t%AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.2.bcf -s worst -f'%POS\t%AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.2.vcf.gz -s worst -f'%POS\t%AF\n' -a BCSQ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.2.bcf -s worst -f'%POS\t%AF\n' -a BCSQ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.2.vcf.gz -s worst -f'%POS\t%INFO/AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.2.bcf -s worst -f'%POS\t%INFO/AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.2.vcf.gz -s worst -f'%POS\t%INFO/AF\n' -a BCSQ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.2.bcf -s worst -f'%POS\t%INFO/AF\n' -a BCSQ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.3.vcf.gz -s worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.3.bcf -s worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.3.vcf.gz -s worst::worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.3.bcf -s worst::worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.3.vcf.gz -s worst -f'[%POS\t%SAMPLE\t%GT\t%Consequence\n]' -i'GT="alt"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.3.bcf -s worst -f'[%POS\t%SAMPLE\t%GT\t%Consequence\n]' -i'GT="alt"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d -H | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d -H | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d -HH | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d -HH | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A @@@ -d -H | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A @@@ -d -H | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.4.bcf -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n'         -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.4.bcf -f '%POS\t%BCSQ\n'         -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d -s ::worst | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.4.bcf -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d -s ::worst | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n'         -A tab -d -s ::worst | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.4.bcf -f '%POS\t%BCSQ\n'         -A tab -d -s ::worst | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -c gnomAD_NFE_AF:real,ALLELE_NUM:int | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -c gnomAD_NFE_AF:real,ALLELE_NUM:int | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -c gnomAD_NFE_AF,ALLELE_NUM          | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -c gnomAD_NFE_AF,ALLELE_NUM          | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.5.vcf.gz -s :synonymous    -c Consequence | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.5.bcf -s :synonymous    -c Consequence | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.5.vcf.gz -s :synonymous -x -c Consequence | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.5.bcf -s :synonymous -x -c Consequence | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.6.vcf.gz -c SAS_AF | grep ID=SAS_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.6.bcf -c SAS_AF | grep ID=SAS_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.6.vcf.gz -c - | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.6.bcf -c - | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.6.vcf.gz -c - -s worst | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.6.bcf -c - -s worst | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.7.vcf.gz --annotation 'ANN' -c IMPACT -i 'INFO/IMPACT[*] ~ "MODIFIER"' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.7.bcf --annotation 'ANN' -c IMPACT -i 'INFO/IMPACT[*] ~ "MODIFIER"' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.8.vcf.gz -a BCSQ -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.8.bcf -a BCSQ -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.8.vcf.gz         -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.8.bcf         -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.8.vcf.gz -a BCSQ -s worst -f '%POS\t%Consequence\t%amino_acid_change\t%BCSQ\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.8.bcf -a BCSQ -s worst -f '%POS\t%Consequence\t%amino_acid_change\t%BCSQ\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.8.vcf.gz         -s worst -f '%POS\t%Consequence\t%amino_acid_change\t%BCSQ\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.8.bcf         -s worst -f '%POS\t%Consequence\t%amino_acid_change\t%BCSQ\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.9.vcf.gz -a BCSQ -f '%CHROM\t%POS\t%REF\t%ALT\t%BCSQ\n' -d -A tab | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.9.bcf -a BCSQ -f '%CHROM\t%POS\t%REF\t%ALT\t%BCSQ\n' -d -A tab | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.9.vcf.gz -a BCSQ -f '%xPOS %xConsequence\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.9.bcf -a BCSQ -f '%xPOS %xConsequence\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.10.vcf.gz -a CSQ -f '%M_CAP_pred %M_CAP_score\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.10.bcf -a CSQ -f '%M_CAP_pred %M_CAP_score\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.10.vcf.gz -a CSQ -f '%xM_CAP_pred %xM_CAP_score\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.10.bcf -a CSQ -f '%xM_CAP_pred %xM_CAP_score\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.10.vcf.gz        -f '%xM_CAP_pred %xM_CAP_score\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.10.bcf        -f '%xM_CAP_pred %xM_CAP_score\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23/test/split-vep.gene-list.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23/test/split-vep.gene-list.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23/test/split-vep.mixed-list.txt --gene-list-fields Feature,SYMBOL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g /builddir/build/BUILD/bcftools-1.23/test/split-vep.mixed-list.txt --gene-list-fields Feature,SYMBOL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23/test/split-vep.gene-list.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23/test/split-vep.gene-list.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.vcf.gz -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23/test/split-vep.mixed-list.txt --gene-list-fields Feature,SYMBOL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.gene-list.bcf -d -f '%CHROM:%POS %Gene %Consequence\n' -g +/builddir/build/BUILD/bcftools-1.23/test/split-vep.mixed-list.txt --gene-list-fields Feature,SYMBOL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.broken-LoF.vcf.gz -d -f '%CHROM:%POS %Consequence %LoF_info\n' -a vep | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.broken-LoF.bcf -d -f '%CHROM:%POS %Consequence %LoF_info\n' -a vep | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.broken-LoF.vcf.gz -d -f '%CHROM:%POS %LoF_info\n' -a vep -i 'Consequence=="frameshift_variant"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.broken-LoF.bcf -d -f '%CHROM:%POS %LoF_info\n' -a vep -i 'Consequence=="frameshift_variant"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -f'%POS\n' -i'SYMBOL~"SAMD11"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -f'%POS\n' -i'SYMBOL~"SAMD11"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.vcf.gz -f'%POS\t%MAX_AF\n' -i'MAX_AF>0.999' -c MAX_AF,MAX_AF:float,MAX_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.bcf -f'%POS\t%MAX_AF\n' -i'MAX_AF>0.999' -c MAX_AF,MAX_AF:float,MAX_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.filter.vcf.gz -s worst -i'CSQ~"nonsense"' -f '%POS %Consequence %Feature %BIOTYPE' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.filter.bcf -s worst -i'CSQ~"nonsense"' -f '%POS %Consequence %Feature %BIOTYPE' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.filter.vcf.gz -s worst -i'CSQ~"nonsense"' -f '%POS %Consequence %Feature %BIOTYPE %CSQ' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.filter.bcf -s worst -i'CSQ~"nonsense"' -f '%POS %Consequence %Feature %BIOTYPE %CSQ' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL=YES | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL=YES | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL!=YES | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL!=YES | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL= | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s CANONICAL= | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s MANE_SELECT!='' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -f '%POS %CANONICAL %MANE_SELECT %Consequence' -s MANE_SELECT!='' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -s mane | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -s primary | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.vcf.gz -s PolyPhen~damaging | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.select-tr-expr.bcf -s PolyPhen~damaging | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.types.vcf.gz -f'%cDNA_position %CDS_position %Protein_position' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.types.bcf -f'%cDNA_position %CDS_position %Protein_position' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.types.vcf.gz -f'%cDNA_position %CDS_position %Protein_position' -c cDNA_position:int,CDS_position:int,Protein_position:int | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.types.bcf -f'%cDNA_position %CDS_position %Protein_position' -c cDNA_position:int,CDS_position:int,Protein_position:int | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.filter-missing-bt2098.vcf.gz -e 'gnomad_genomes_AF >= 0.02' | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS 	 %gnomad_genomes_AF
' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.filter-missing-bt2098.bcf -e 'gnomad_genomes_AF >= 0.02' | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS 	 %gnomad_genomes_AF
' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.filter-missing-bt2098.vcf.gz -i 'gnomad_genomes_AF < 0.02 || gnomad_genomes_AF=="."' | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS 	 %gnomad_genomes_AF
' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split-vep /tmp/S78K2owDcN/split-vep.filter-missing-bt2098.bcf -i 'gnomad_genomes_AF < 0.02 || gnomad_genomes_AF=="."' | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM %POS 	 %gnomad_genomes_AF
' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.vcf.gz -r 20:100 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.bcf -r 20:100 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.vcf.gz -r 20:101 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.bcf -r 20:101 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.vcf.gz -r 20:102 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.bcf -r 20:102 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.vcf.gz -r 20:103 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.bcf -r 20:103 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.vcf.gz -r 20:104 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +parental-origin /tmp/S78K2owDcN/parental-origin.bcf -r 20:104 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/S78K2owDcN/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/S78K2owDcN/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/S78K2owDcN/prune.2.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 1 -a r2,LD,HD /tmp/S78K2owDcN/prune.2.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5 -f MaxR2 /tmp/S78K2owDcN/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5 -f MaxR2 /tmp/S78K2owDcN/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5  /tmp/S78K2owDcN/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2 -a r2 -m 0.5  /tmp/S78K2owDcN/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF /tmp/S78K2owDcN/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF /tmp/S78K2owDcN/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF -i 'GT="alt"' /tmp/S78K2owDcN/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 --AF-tag AF -i 'GT="alt"' /tmp/S78K2owDcN/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N 1st /tmp/S78K2owDcN/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N 1st /tmp/S78K2owDcN/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N rand --random-seed 1 /tmp/S78K2owDcN/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 2bp -n 1 -N rand --random-seed 1 /tmp/S78K2owDcN/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' -k /tmp/S78K2owDcN/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' -k /tmp/S78K2owDcN/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' /tmp/S78K2owDcN/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -a count -i 'XX!=0' /tmp/S78K2owDcN/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -m count=2 -i 'XX!=0' /tmp/S78K2owDcN/prune.3.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +prune -w 3bp -m count=2 -i 'XX!=0' /tmp/S78K2owDcN/prune.3.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance /tmp/S78K2owDcN/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance /tmp/S78K2owDcN/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d nearest /tmp/S78K2owDcN/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d nearest /tmp/S78K2owDcN/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d fwd /tmp/S78K2owDcN/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d fwd /tmp/S78K2owDcN/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d rev /tmp/S78K2owDcN/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d rev /tmp/S78K2owDcN/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d both /tmp/S78K2owDcN/variant-distance.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +variant-distance -d both /tmp/S78K2owDcN/variant-distance.bcf  | grep -v ^##bcftools_
.. ok

test_plugin_vrfs:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vrfs -a /tmp/S78K2owDcN/mpileup.bam.list -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -s /builddir/build/BUILD/bcftools-1.23/test/vrfs.sites.txt | sort
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/S78K2owDcN/split.1.1   && cd /tmp/S78K2owDcN/split.1.1  && for f in A1.vcf A2.vcf A3.vcf B1.vcf B2.vcf C.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/S78K2owDcN/split.1.2 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.2.txt  && cd /tmp/S78K2owDcN/split.1.2  && for f in A.vcf B.vcf C.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/S78K2owDcN/split.1.3 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.3.txt  && cd /tmp/S78K2owDcN/split.1.3  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/S78K2owDcN/split.1.4 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.3.txt -i 'GT[0]="alt"'  && cd /tmp/S78K2owDcN/split.1.4  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/S78K2owDcN/split.1.5 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.3.txt -i 'GT="alt"'  && cd /tmp/S78K2owDcN/split.1.5  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/S78K2owDcN/split.1.6 -S /builddir/build/BUILD/bcftools-1.23/test/split.smpl.1.4.txt -i 'GT="alt"'  && cd /tmp/S78K2owDcN/split.1.6  && for f in file1.vcf file2.vcf file3.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.1.vcf -o /tmp/S78K2owDcN/split.1.7 -G /builddir/build/BUILD/bcftools-1.23/test/split.grp.1.1.txt  && cd /tmp/S78K2owDcN/split.1.7  && for f in A.vcf A1.vcf A2.vcf B.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_split:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +split /builddir/build/BUILD/bcftools-1.23/test/split.2.vcf -o /tmp/S78K2owDcN/split.2.1   && cd /tmp/S78K2owDcN/split.2.1  && for f in A1_A1-1.vcf A1_A1-2.vcf A1_A1.vcf B1.vcf B2.vcf C.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.23/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.23/bcftools view -H $f; done
.. ok

test_plugin_scatter:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23/test/scatter.1.vcf -o /tmp/S78K2owDcN/scatter.1.1 -n 3 && cd /tmp/S78K2owDcN/scatter.1.1 && cat 0.vcf 1.vcf 2.vcf | grep -v ^##
.. ok

test_plugin_scatter:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23/test/scatter.1.vcf -o /tmp/S78K2owDcN/scatter.1.2 -s 21,22 && cd /tmp/S78K2owDcN/scatter.1.2 && cat 21.vcf 22.vcf | grep -v ^##
.. ok

test_plugin_scatter:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +scatter /builddir/build/BUILD/bcftools-1.23/test/scatter.1.vcf -o /tmp/S78K2owDcN/scatter.1.3 -s 21,22 -x X && cd /tmp/S78K2owDcN/scatter.1.3 && cat 21.vcf 22.vcf X.vcf | grep -v ^##
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -G  /tmp/S78K2owDcN/concat.1.a.vcf.gz /tmp/S78K2owDcN/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -G  /tmp/S78K2owDcN/concat.1.a.vcf.gz /tmp/S78K2owDcN/concat.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -G  /builddir/build/BUILD/bcftools-1.23/test/concat.1.a.vcf /builddir/build/BUILD/bcftools-1.23/test/concat.1.b.vcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version   /tmp/S78K2owDcN/concat.1.a.vcf.gz /tmp/S78K2owDcN/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob   /tmp/S78K2owDcN/concat.1.a.vcf.gz /tmp/S78K2owDcN/concat.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version   /builddir/build/BUILD/bcftools-1.23/test/concat.1.a.vcf /builddir/build/BUILD/bcftools-1.23/test/concat.1.b.vcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version   /tmp/S78K2owDcN/concat.1.a.bcf /tmp/S78K2owDcN/concat.1.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob   /tmp/S78K2owDcN/concat.1.a.bcf /tmp/S78K2owDcN/concat.1.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -a  /tmp/S78K2owDcN/concat.2.a.vcf.gz /tmp/S78K2owDcN/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -a  /tmp/S78K2owDcN/concat.2.a.vcf.gz /tmp/S78K2owDcN/concat.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -a  /tmp/S78K2owDcN/concat.2.a.bcf /tmp/S78K2owDcN/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -a  /tmp/S78K2owDcN/concat.2.a.bcf /tmp/S78K2owDcN/concat.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -aD  /tmp/S78K2owDcN/concat.2.a.vcf.gz /tmp/S78K2owDcN/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -aD  /tmp/S78K2owDcN/concat.2.a.vcf.gz /tmp/S78K2owDcN/concat.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -aD  /tmp/S78K2owDcN/concat.2.a.bcf /tmp/S78K2owDcN/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -aD  /tmp/S78K2owDcN/concat.2.a.bcf /tmp/S78K2owDcN/concat.2.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/S78K2owDcN/concat.3.a.vcf.gz /tmp/S78K2owDcN/concat.3.b.vcf.gz /tmp/S78K2owDcN/concat.3.0.vcf.gz /tmp/S78K2owDcN/concat.3.c.vcf.gz /tmp/S78K2owDcN/concat.3.d.vcf.gz /tmp/S78K2owDcN/concat.3.e.vcf.gz /tmp/S78K2owDcN/concat.3.f.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/S78K2owDcN/concat.3.a.vcf.gz /tmp/S78K2owDcN/concat.3.b.vcf.gz /tmp/S78K2owDcN/concat.3.0.vcf.gz /tmp/S78K2owDcN/concat.3.c.vcf.gz /tmp/S78K2owDcN/concat.3.d.vcf.gz /tmp/S78K2owDcN/concat.3.e.vcf.gz /tmp/S78K2owDcN/concat.3.f.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/S78K2owDcN/concat.3.a.bcf /tmp/S78K2owDcN/concat.3.b.bcf /tmp/S78K2owDcN/concat.3.0.bcf /tmp/S78K2owDcN/concat.3.c.bcf /tmp/S78K2owDcN/concat.3.d.bcf /tmp/S78K2owDcN/concat.3.e.bcf /tmp/S78K2owDcN/concat.3.f.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/S78K2owDcN/concat.3.a.bcf /tmp/S78K2owDcN/concat.3.b.bcf /tmp/S78K2owDcN/concat.3.0.bcf /tmp/S78K2owDcN/concat.3.c.bcf /tmp/S78K2owDcN/concat.3.d.bcf /tmp/S78K2owDcN/concat.3.e.bcf /tmp/S78K2owDcN/concat.3.f.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
Random seed for test_naive_concat: 786460520
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --naive-force /tmp/S78K2owDcN/naive_concat.0.bcf /tmp/S78K2owDcN/naive_concat.1.bcf /tmp/S78K2owDcN/naive_concat.2.bcf /tmp/S78K2owDcN/naive_concat.3.bcf /tmp/S78K2owDcN/naive_concat.4.bcf /tmp/S78K2owDcN/naive_concat.5.bcf /tmp/S78K2owDcN/naive_concat.6.bcf /tmp/S78K2owDcN/naive_concat.7.bcf /tmp/S78K2owDcN/naive_concat.8.bcf /tmp/S78K2owDcN/naive_concat.9.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --naive /tmp/S78K2owDcN/naive_concat.0.vcf.gz /tmp/S78K2owDcN/naive_concat.1.vcf.gz /tmp/S78K2owDcN/naive_concat.2.vcf.gz /tmp/S78K2owDcN/naive_concat.3.vcf.gz /tmp/S78K2owDcN/naive_concat.4.vcf.gz /tmp/S78K2owDcN/naive_concat.5.vcf.gz /tmp/S78K2owDcN/naive_concat.6.vcf.gz /tmp/S78K2owDcN/naive_concat.7.vcf.gz /tmp/S78K2owDcN/naive_concat.8.vcf.gz /tmp/S78K2owDcN/naive_concat.9.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view -H
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l  /tmp/S78K2owDcN/concat.4.a.vcf.gz /tmp/S78K2owDcN/concat.4.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l  /tmp/S78K2owDcN/concat.4.a.vcf.gz /tmp/S78K2owDcN/concat.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l  /tmp/S78K2owDcN/concat.4.a.bcf /tmp/S78K2owDcN/concat.4.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l  /tmp/S78K2owDcN/concat.4.a.bcf /tmp/S78K2owDcN/concat.4.b.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/S78K2owDcN/concat.5.a.vcf.gz /tmp/S78K2owDcN/concat.5.b.vcf.gz /tmp/S78K2owDcN/concat.5.c.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/S78K2owDcN/concat.5.a.vcf.gz /tmp/S78K2owDcN/concat.5.b.vcf.gz /tmp/S78K2owDcN/concat.5.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-warn  /tmp/S78K2owDcN/concat.5.a.bcf /tmp/S78K2owDcN/concat.5.b.bcf /tmp/S78K2owDcN/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-warn  /tmp/S78K2owDcN/concat.5.a.bcf /tmp/S78K2owDcN/concat.5.b.bcf /tmp/S78K2owDcN/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -l --ligate-force  /tmp/S78K2owDcN/concat.5.a.bcf /tmp/S78K2owDcN/concat.5.b.bcf /tmp/S78K2owDcN/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -l --ligate-force  /tmp/S78K2owDcN/concat.5.a.bcf /tmp/S78K2owDcN/concat.5.b.bcf /tmp/S78K2owDcN/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -G -a -D  /tmp/S78K2owDcN/concat.5.a.vcf.gz /tmp/S78K2owDcN/concat.5.b.vcf.gz /tmp/S78K2owDcN/concat.5.c.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -G -a -D  /tmp/S78K2owDcN/concat.5.a.vcf.gz /tmp/S78K2owDcN/concat.5.b.vcf.gz /tmp/S78K2owDcN/concat.5.c.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat --no-version -G -a -D  /tmp/S78K2owDcN/concat.5.a.bcf /tmp/S78K2owDcN/concat.5.b.bcf /tmp/S78K2owDcN/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.23/bcftools concat -Ob -G -a -D  /tmp/S78K2owDcN/concat.5.a.bcf /tmp/S78K2owDcN/concat.5.b.bcf /tmp/S78K2owDcN/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -N /builddir/build/BUILD/bcftools-1.23/test/reheader.samples | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -n AAA,BBB | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -s /builddir/build/BUILD/bcftools-1.23/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr /builddir/build/BUILD/bcftools-1.23/test/empty.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.23/test/empty.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr /tmp/S78K2owDcN/empty.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/empty.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr /tmp/S78K2owDcN/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/S78K2owDcN/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /builddir/build/BUILD/bcftools-1.23/test/reheader.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /tmp/S78K2owDcN/reheader.2.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /tmp/S78K2owDcN/reheader.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /builddir/build/BUILD/bcftools-1.23/test/reheader.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /tmp/S78K2owDcN/reheader.2.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -h /builddir/build/BUILD/bcftools-1.23/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.23/test/reheader.fai /tmp/S78K2owDcN/reheader.2.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.3.fai /builddir/build/BUILD/bcftools-1.23/test/reheader.3.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.3.fai /tmp/S78K2owDcN/reheader.3.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.23/bcftools reheader -f /builddir/build/BUILD/bcftools-1.23/test/reheader.3.fai /tmp/S78K2owDcN/reheader.3.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate --rename-chrs /tmp/S78K2owDcN/rename.map -Ov /tmp/S78K2owDcN/annotate.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate --rename-chrs /tmp/S78K2owDcN/rename.map -Ob /tmp/S78K2owDcN/annotate.bcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate --rename-chrs /tmp/S78K2owDcN/rename.map -Ov /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.23/bcftools annotate --rename-chrs /tmp/S78K2owDcN/rename.map -Ob /builddir/build/BUILD/bcftools-1.23/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids --3N6 /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,-
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert  --vcf-ids -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert  --vcf-ids -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --3N6 -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.3N6.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --3N6 -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.3N6.gen,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --vcf-ids -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --vcf-ids -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -G /builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.23/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --tag PL /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --tag PL
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --tag PL /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --tag PL
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids /tmp/S78K2owDcN/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --vcf-ids /tmp/S78K2owDcN/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --3N6 /tmp/S78K2owDcN/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --3N6 /tmp/S78K2owDcN/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --3N6 --vcf-ids /tmp/S78K2owDcN/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g -,. --3N6 --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --3N6 --vcf-ids /tmp/S78K2owDcN/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/check.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -g .,- --3N6 --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -h -,.,. /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -h -,.,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,-,. /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,-,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,-,. --vcf-ids /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,-,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,.,- /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert -h .,.,-
.. ok

test_vcf_convert_hls2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -H /builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.legend,/builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hls2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -H /builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.legend,/builddir/build/BUILD/bcftools-1.23/test/convert.hls.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --haplegendsample -,.,. /tmp/S78K2owDcN/convert.hap-missing.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.hap-missing.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --haplegendsample -,.,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample -,. /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample -,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample -,. --vcf-ids /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample .,- /tmp/S78K2owDcN/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample .,-
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --hapsample2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --vcf-ids --hapsample2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.ids.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --vcf-ids --hapsample2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.ids.hap,/builddir/build/BUILD/bcftools-1.23/test/convert.hs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/convert.gvcf.vcf.gz
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa /tmp/S78K2owDcN/convert.gvcf.vcf.gz -Ou | /builddir/build/BUILD/bcftools-1.23/bcftools view --no-version
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools view -Ob /tmp/S78K2owDcN/convert.gvcf.vcf.gz | /builddir/build/BUILD/bcftools-1.23/bcftools convert --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.23/test/gvcf.fa | grep -v ^##bcftools
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --no-version  -c ID,CHROM,POS,AA -s SAMPLE1 -f /builddir/build/BUILD/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.23andme
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -Ou  -c ID,CHROM,POS,AA -s SAMPLE1 -f /builddir/build/BUILD/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.23andme | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert --no-version  -c -,CHROM,POS,REF,ALT -f /builddir/build/BUILD/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.tsv
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.23/bcftools convert -Ou  -c -,CHROM,POS,REF,ALT -f /builddir/build/BUILD/bcftools-1.23/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.23/test/convert.tsv | /builddir/build/BUILD/bcftools-1.23/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.gvcf-missing.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.gvcf-missing.fa --missing N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.gvcf-missing.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.gvcf-missing.fa --missing N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.2.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.2.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s B  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s B  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s A -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s A -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s B -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.overlaps.1.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.overlaps.1.fa -s B -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.beyond.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.beyond.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.beyond.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.beyond.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab -c /tmp/S78K2owDcN/consensus.1.chain.new >/dev/null; cat /tmp/S78K2owDcN/consensus.1.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab -c /tmp/S78K2owDcN/consensus.2.chain.new >/dev/null; cat /tmp/S78K2owDcN/consensus.2.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -I -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -I -s - -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -I -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab --mask-with X -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab --mask-with lc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -I -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab --mask-with X -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab --mask-with lc  
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -I -m /builddir/build/BUILD/bcftools-1.23/test/consensus.tab -c /tmp/S78K2owDcN/consensus.3.chain.new >/dev/null; cat /tmp/S78K2owDcN/consensus.3.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1  
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H 1  -c /tmp/S78K2owDcN/consensus.4.chain.new >/dev/null; cat /tmp/S78K2owDcN/consensus.4.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus2.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus2.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus2.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/empty.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/empty.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2 -M "?"  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus3.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2 -M "?"  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus3.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2 -M "?" -p xx_  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus3.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -H 2 -M "?" -p xx_  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus4.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus4.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus5.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus5.fa --haplotype LA  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus5.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus5.fa --haplotype LA  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus6.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus6.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus6.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus6.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 4  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 4  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 2pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 2pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 4pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 4pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 3  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 3  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 1pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 1pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 3pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus7.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus7.fa -H 3pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP>15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP>15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP<15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus8.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -a . -e 'MinDP<15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.9.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.9.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.9.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.9.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.10.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.10.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.10.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.10.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.11.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.11.fa -s smpl  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.11.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.11.fa -s smpl  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.11.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.11.fa -s smpl -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.11.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.11.fa -s smpl -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.13.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.13.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.13.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.13.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.14.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.14.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.14.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.14.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s - --mark-del - --mark-ins uc --mark-snv uc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s - --mark-del - --mark-ins uc --mark-snv uc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s - --mark-del - --mark-ins + --mark-snv :  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.12.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.12.fa -s - --mark-del - --mark-ins + --mark-snv :  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.15.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.15.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.16.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.16.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -s - -I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.16.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.16.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.fa -H I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.17.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -s - -M N -m /builddir/build/BUILD/bcftools-1.23/test/consensus.17.bed 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.17.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus2.fa -s - -M N -m /builddir/build/BUILD/bcftools-1.23/test/consensus.17.bed 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.18.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.18.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.18.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.18.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.19.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.19.fa -s -   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.19.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.19.fa -s -   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -s -  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -s b  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -s b  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -s a  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -s a  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23/test/consensus.20.b.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23/test/consensus.20.b.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23/test/consensus.20.a.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.20.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.20.fa -M . -S /builddir/build/BUILD/bcftools-1.23/test/consensus.20.a.txt  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.21.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.21.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.21.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.21.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 0 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 0 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 1 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 1 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 2 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 2 --mark-del .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 0  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 0  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.vcf.gz -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.23/bcftools consensus /tmp/S78K2owDcN/consensus.22.bcf    -f /builddir/build/BUILD/bcftools-1.23/test/consensus.22.fa --regions-overlap 2  
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r 11:10-20 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/iupac.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/iupac.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r 11:10-20 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/iupac.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/iupac.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/S78K2owDcN/mpileup.bam.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/S78K2owDcN/mpileup.bam.urllist | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/S78K2owDcN/mpileup.cram.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-102,17:102-103,17:103-104,17:104-105,17:100-105 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/S78K2owDcN/mpileup.cram.urllist | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/S78K2owDcN/mpileup.bam.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/S78K2owDcN/mpileup.bam.urllist | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -b /tmp/S78K2owDcN/mpileup.cram.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -r17:100-150 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob -b /tmp/S78K2owDcN/mpileup.cram.urllist | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV -r17:100-600 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP,-AD -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP,-AD -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP,-AD -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP,-AD -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a DP,DV,-AD -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.23/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -S /builddir/build/BUILD/bcftools-1.23/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t17:100-150 -G /builddir/build/BUILD/bcftools-1.23/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s HG00102 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -G /builddir/build/BUILD/bcftools-1.23/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD --indels-cns -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.1.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.cram | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-set PAIRED,PROPER_PAIR,MREVERSE -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-set PAIRED,PROPER_PAIR,MREVERSE -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-set READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-set READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-unset READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-all-unset READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-unset READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD -t 1:100 --skip-any-unset READ1 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr19:69-99 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.1.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr19:69-99 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.1.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.1.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr6:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.2.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr6:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.2.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr16:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.fa /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.23/bcftools mpileup -a -AD,INFO/NMBZ -r chr16:75 -f /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.fa -Ob /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.1.bam /builddir/build/BUILD/bcftools-1.23/test/mpileup/annot-NMBZ.3.2.bam | /builddir/build/BUILD/bcftools-1.23/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.gff3 /builddir/build/BUILD/bcftools-1.23/test/csq.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.chr.gff3 --unify-chr-names -,chr,- /builddir/build/BUILD/bcftools-1.23/test/csq.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.2.gff /builddir/build/BUILD/bcftools-1.23/test/csq.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.2.gff --ncsq 64 /builddir/build/BUILD/bcftools-1.23/test/csq.2.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa --unify-chr-names -,-,- /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.fa --unify-chr-names -,-,chr /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa --unify-chr-names -,chr,- /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.fa --unify-chr-names -,chr,chr /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.fa --unify-chr-names chr,chr,chr /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.fa --unify-chr-names chr,-,chr /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa --unify-chr-names chr,chr,- /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -g /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.gff -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa --unify-chr-names chr,-,- /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq.nchr.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq.ychr.gff --unify-chr-names Chromosome,chr,- /builddir/build/BUILD/bcftools-1.23/test/csq.yychr.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/not-a-stop.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/ENST00000303039.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000303039/not-a-stop.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000593942/ENST00000593942.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000593942/ENST00000593942.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000593942/last-codon-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000528237/ENST00000528237.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000528237/ENST00000528237.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000528237/retained-stop-incomplete-cds.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000422159 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000422159.fa -g ENST00000422159.gff multiallelic.vcf  | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000422159.fa -g short.gff multiallelic.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000390520/ENST00000390520.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000390520/ENST00000390520.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000390520/deletion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/ENST00000543077.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000543077/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/EMN908947 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f EMN908947.fa -g ribosomal-slippage.gff ribosomal-slippage.vcf --force | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/EMN908947 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f EMN908947.fa -g simple.gff simple.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000379416 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.del-snp.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-del.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-ins.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-snp.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff single.vcf                 | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000301246/ENST00000301246.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000301246/ENST00000301246.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000301246/15bp-insert.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/ENST00000295641.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000295641/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414-ENST00000521270/valgrind.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000571540/ENST00000571540.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000571540/ENST00000571540.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000571540/nmd.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000285021/ENST00000285021.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000285021/ENST00000285021.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000285021/stop-gained-inframe-indel.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/short-cds-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/ENST00000479739.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000479739/short-cds-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000357367/ENST00000357367.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000357367/ENST00000357367.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000357367/stop-retained.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000230048/ENST00000230048.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000230048/ENST00000230048.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000230048/start-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/splice-region.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/ENST00000542803.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000542803/splice-region.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame2.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame2.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/frame3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000368801.2.fa -g ENST00000368801.2.gff alt-gencode.vcf -v 0 -C 0 | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%BCSQ\n' | ../sort-csq -q
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000368801.2.fa -g ENST00000368801.2.gff alt-gencode.vcf -v 0 -C 1 | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%BCSQ\n' | ../sort-csq -q
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2/ENST00000368801.2.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2/ENST00000368801.2.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801.2/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414/ENST00000518414.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414/ENST00000518414.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000518414/incorrect-inframe-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000382647/ENST00000382647.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000382647/ENST00000382647.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000382647/synon-splice-region-insert.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.gff /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/starts-with-1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/EDUMMY0001.gff /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0001/starts-with-1.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000000001 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000000001.fa -g ENST00000000001.gff test.vcf -p a -Ot | grep -v ^#
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000000001 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000000001.fa -g ENST00000000001.gff test.vcf -p a | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000400151/ENST00000400151.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000400151/ENST00000400151.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000400151/long-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000580206 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff single.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENST00000580206.fa -g short.gff single.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/long-inside-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/ENST00000520795.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520795/long-inside-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000519442/ENST00000519442.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000519442/ENST00000519442.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000519442/synon-splice-region-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420190/ENST00000420190.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420190/ENST00000420190.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420190/abort-in-csq-push.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000557788/ENST00000557788.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000557788/ENST00000557788.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000557788/long-overlap-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0003/EDUMMY0003.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0003/EDUMMY0003.gff /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0003/long-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENSMUST00000133836 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENSMUST00000133836.fa -g ENSMUST00000133836.gff filter-problem.vcf -i 'FILTER="PASS"' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000436063/ENST00000436063.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000436063/ENST00000436063.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000436063/insert-before-utr.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000375992/ENST00000375992.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000375992/ENST00000375992.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000375992/incorrect-synon-del-not-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249.2/ENST00000318249.2.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249.2/ENST00000318249.2.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249.2/synonymous-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25500' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25496' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25105' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0002/EDUMMY0002.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0002/EDUMMY0002.gff /builddir/build/BUILD/bcftools-1.23/test/csq/EDUMMY0002/boundaries.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000269081/ENST00000269081.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000269081/ENST00000269081.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000269081/stop-gained-not-inframe-insertion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000271583/ENST00000271583.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000271583/ENST00000271583.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000271583/splice-acceptor.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/non-coding-boundary.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/ENST00000294661.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000294661/non-coding-boundary.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000256452/ENST00000256452.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000256452/ENST00000256452.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000256452/intron.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENSCAFT00000047742/ENSCAFT00000047742.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENSCAFT00000047742/ENSCAFT00000047742.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENSCAFT00000047742/test.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573035-bt2212/complex-event.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000227471/ENST00000227471.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000227471/ENST00000227471.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000227471/insert-splice-vs-frameshift.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/boundary-insertion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/ENST00000373833.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000373833/boundary-insertion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/ENST00000318249.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000318249/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000624631/ENST00000624631.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000624631/ENST00000624631.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000624631/ambiguous.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -b -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -B 5 -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -lb -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009/ENST00000410009.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009/ENST00000410009.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000410009/frameshift.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000360372/ENST00000360372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000360372/ENST00000360372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000360372/mnp.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000409523/ENST00000409523.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000409523/ENST00000409523.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000409523/long-overlapping-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/start-lost-del.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000218032/start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/snps.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/snps.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/insert3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000423372/insert3.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000545279/ENST00000545279.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000545279/ENST00000545279.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000545279/splice-region-insert.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/start-stop-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/ENST00000420670.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000420670/segfault.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000381157/ENST00000381157.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000381157/ENST00000381157.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000381157/haploid-diploid.vcf | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520868/ENST00000520868.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520868/ENST00000520868.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000520868/long-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/ENST00000573314.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801/ENST00000368801.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801/ENST00000368801.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000368801/compound-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000448695/ENST00000448695.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000448695/ENST00000448695.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000448695/syn-and-splice-reg.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/end-overlap-tscript.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/ENST00000378322.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000378322/end-overlap-tscript.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/boundary-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/ENST00000329454.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000329454/boundary-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENSG00000173376/ENSG00000173376.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENSG00000173376/ENSG00000173376.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENSG00000173376/synon.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000413103/ENST00000413103.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000413103/ENST00000413103.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000413103/long-deletion.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/ENST00000536784.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000536784/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000000000 && /builddir/build/BUILD/bcftools-1.23/bcftools csq -p a -f ENST00000000000.fa -g ENST00000000000.gff upstream-stop.vcf  | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'[%POS\t%REF\t%ALT\t%SAMPLE\t%GT\t%TBCSQ\n]' | ../sort-csq -q
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.23/bcftools csq -f /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000263103-INS/ENST00000263103-INS.fa -g /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000263103-INS/ENST00000263103-INS.gff /builddir/build/BUILD/bcftools-1.23/test/csq/ENST00000263103-INS/insertions.vcf | /builddir/build/BUILD/bcftools-1.23/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.23/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz -Or -G30 --AF-dflt 0.4| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz -Or -G30 --AF-file /builddir/build/BUILD/bcftools-1.23/test/roh.1.tab.gz| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz -Or -G30 --AF-file /builddir/build/BUILD/bcftools-1.23/test/roh.1.tab.gz --ignore-homref| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245 --ignore-homref| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245 --ignore-homref --include-noalt| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.23/bcftools roh /builddir/build/BUILD/bcftools-1.23/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245 --include-noalt| grep -v ^#
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck --keep-refs /tmp/S78K2owDcN/gtcheck.gvcf.a.vcf.gz -g /tmp/S78K2owDcN/gtcheck.gvcf.b.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck --keep-refs /tmp/S78K2owDcN/gtcheck.gvcf.b.vcf.gz -g /tmp/S78K2owDcN/gtcheck.gvcf.a.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck  /tmp/S78K2owDcN/gtcheck.gvcf.a.vcf.gz -g /tmp/S78K2owDcN/gtcheck.gvcf.b.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck  /tmp/S78K2owDcN/gtcheck.gvcf.b.vcf.gz -g /tmp/S78K2owDcN/gtcheck.gvcf.a.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 --no-HWE-prob /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u GT,GT /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u GT,PL /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL,GT /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL,PL /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -p s1,s1 /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 /tmp/S78K2owDcN/gtcheck.2.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0  /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -p B,A,C,A,C,B,D,A,D,B,D,C,E,A,E,B,E,C,E,D /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23/test/gtcheck.3.pairs /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 --n-matches 4 /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO  | sort
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:E,D,C /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:E,D,C -u PL /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D -u PL /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -s qry:B -s gt:D,C /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -p B,C,B,D /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u GT,GT -H /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u GT,PL -H /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL,GT -H /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -u PL,PL -H /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23/test/gtcheck.4.pairs --distinctive-sites 3 /tmp/S78K2owDcN/gtcheck.4.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.23/test/gtcheck.4.pairs --distinctive-sites 3,1 /tmp/S78K2owDcN/gtcheck.4.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -u GT -e 30 /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -u GT -e 300 /tmp/S78K2owDcN/gtcheck.1.vcf.gz -g /tmp/S78K2owDcN/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -u PL -e 30 /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck  /tmp/S78K2owDcN/gtcheck.ntop.vcf.gz -g /tmp/S78K2owDcN/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck --n-matches 2 /tmp/S78K2owDcN/gtcheck.ntop.vcf.gz -g /tmp/S78K2owDcN/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck  /tmp/S78K2owDcN/gtcheck.5.vcf.gz -g /tmp/S78K2owDcN/gtcheck.5.gts.vcf.gz | grep -v ^# | grep -v Time
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -p A,B,B,C /tmp/S78K2owDcN/gtcheck.6.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.23/bcftools gtcheck -t 11:33 -p A,D,A,E,D,E -u GT -e 10 /tmp/S78K2owDcN/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vcf2table /tmp/S78K2owDcN/merge.4.b.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vcf2table /tmp/S78K2owDcN/merge.4.b.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vcf2table /tmp/S78K2owDcN/split-vep.2.vcf.gz  -- --hide 'INFO,URL' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	export BCFTOOLS_PLUGINS=/builddir/build/BUILD/bcftools-1.23/plugins; /builddir/build/BUILD/bcftools-1.23/bcftools +vcf2table /tmp/S78K2owDcN/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.el10.ppc64le
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.5IFV7l
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.23
+ DOCDIR=/builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/doc/bcftools
+ export LC_ALL=
+ LC_ALL=
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/doc/bcftools
+ cp -pr /builddir/build/BUILD/bcftools-1.23/AUTHORS /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/doc/bcftools
+ cp -pr /builddir/build/BUILD/bcftools-1.23/NEWS /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/doc/bcftools
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.T7v9q7
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.23
+ LICENSEDIR=/builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/licenses/bcftools
+ export LC_ALL=
+ LC_ALL=
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/licenses/bcftools
+ cp -pr /builddir/build/BUILD/bcftools-1.23/LICENSE /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le/usr/share/licenses/bcftools
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: bcftools = 1.23-1.el10 bcftools(ppc-64) = 1.23-1.el10
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: /usr/bin/perl /usr/bin/python3 libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libgsl.so.27()(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_2.32)(64bit) libperl.so.5.40()(64bit) rtld(GNU_HASH)
Conflicts: samtools < 1.0
Processing files: bcftools-debugsource-1.23-1.el10.ppc64le
Provides: bcftools-debugsource = 1.23-1.el10 bcftools-debugsource(ppc-64) = 1.23-1.el10
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.el10.ppc64le
Provides: bcftools-debuginfo = 1.23-1.el10 bcftools-debuginfo(ppc-64) = 1.23-1.el10 debuginfo(build-id) = 026898e2eb57047b2e07da2b26dcb20c2406a264 debuginfo(build-id) = 037203aa12fd17b5d4f8e4ad113bb1a89443f84b debuginfo(build-id) = 120ae378d1a7f98a6bbd7f9c691fee5510d9100a debuginfo(build-id) = 17694c67079861039bbf162a3f648ce98757c3e6 debuginfo(build-id) = 24dc7246376ed65e93390fc71cb90f20be0a5e23 debuginfo(build-id) = 258882a3be26a2a808b5d26f327304852f533c88 debuginfo(build-id) = 281e0da819a4d48a9594efb4b998eadf0ea3ab1e debuginfo(build-id) = 2998c02382cb56a58d894692618b47e0ca9dee51 debuginfo(build-id) = 38e2a082695a7f1f9c089aec9c9a3b17cdba5d53 debuginfo(build-id) = 49d80812532758d159843d03c8ab96f873a525fa debuginfo(build-id) = 4bcef27f40be71dab2140bc55861c4885dec718f debuginfo(build-id) = 4eef9582928cbfd583c16939920de66e6a380000 debuginfo(build-id) = 57edb8b1a4c75542663f012e52519143177e5190 debuginfo(build-id) = 64f1675f4b0b4bcce4db53d413de6ea5ba7ca4be debuginfo(build-id) = 686dc882399621aa71f8082766d593866aa68480 debuginfo(build-id) = 6b44f7f08a735b4214eb9e43d1370c0a27268ca2 debuginfo(build-id) = 70c603a98767d07ee87086751d99642aee2c0ae9 debuginfo(build-id) = 791e808eb4a3388fb9c9fd120ce549cafffa0f7f debuginfo(build-id) = 7d9f0dd6c3bfc31b0fdbf140182d36671b34864a debuginfo(build-id) = 87fa44baa9fcc1c5663115484ee4bc0ab9b77cd0 debuginfo(build-id) = 8e6dd8cbca3cc68a44e7d5c373391d5fcd42a32f debuginfo(build-id) = 8fa1747d11276463b52abec080ec0587ab88ff73 debuginfo(build-id) = 91b99dbbc51f58d0512eadfa3a12d89b8568c22e debuginfo(build-id) = 94b270b9d1d1413a282b5909f019e6ef0a86318c debuginfo(build-id) = 95b7c0a872c64b8d18d0bfe6cf39a647f2f16e7d debuginfo(build-id) = 95ca35b87042af1d652cfe4153f1a7857cbea827 debuginfo(build-id) = 98f22c3213cf944c40113bd7f5e7cdd5638495fe debuginfo(build-id) = a4c5ccf923428b42d55b9d09a18ece227c66e7d1 debuginfo(build-id) = a970014ddb9764c4640686456e426946e91ea748 debuginfo(build-id) = b72b54772f7c5997ccb79a9949f5da6f4e266b2f debuginfo(build-id) = c47183fb39f1fe9cdba0b26f41af893df7c7f6fb debuginfo(build-id) = cc868f9af6274480bd6a06e0ee127f06f8885b80 debuginfo(build-id) = cd048108bd93916d044f3a617e7ea6b6c767ccd7 debuginfo(build-id) = d4c37154e45951b2664272f7763bb58409913be8 debuginfo(build-id) = db5f85793293be0854635d7e50bb36fa57c19be8 debuginfo(build-id) = deb37c5522eed2c684c6adef661f9816f0857d77 debuginfo(build-id) = e1885b2cf077ad31bc98fe45264328ead5eb3028 debuginfo(build-id) = e69518fefaec9fa23f9d9c92c5199f5dcdb37607 debuginfo(build-id) = e9b69bace4c876fae7d1f88c9a63332cac082474 debuginfo(build-id) = f2e0185c3cc3faba3e89ec17784f7894a8563f46 debuginfo(build-id) = f93db59be2e93e259542edc1fcc6da02d95a6647 debuginfo(build-id) = ff4a715d66971eacce52b1cb880f039cf600bfc5
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: bcftools-debugsource(ppc-64) = 1.23-1.el10
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le
Wrote: /builddir/build/RPMS/bcftools-1.23-1.el10.ppc64le.rpm
Wrote: /builddir/build/RPMS/bcftools-debugsource-1.23-1.el10.ppc64le.rpm
Wrote: /builddir/build/RPMS/bcftools-debuginfo-1.23-1.el10.ppc64le.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.YyH87w
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.23
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/bcftools-1.23-1.el10.ppc64le
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.SBnC6R
+ umask 022
+ cd /builddir/build/BUILD
+ rm -rf /builddir/build/BUILD/bcftools-1.23-SPECPARTS
+ rm -rf bcftools-1.23 bcftools-1.23.gemspec
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild bcftools-1.23-1.el10.src.rpm
Finish: build phase for bcftools-1.23-1.el10.src.rpm
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/centos-stream+epel-10-ppc64le-1769502186.073250/root/var/log/dnf.rpm.log
/var/lib/mock/centos-stream+epel-10-ppc64le-1769502186.073250/root/var/log/dnf.librepo.log
/var/lib/mock/centos-stream+epel-10-ppc64le-1769502186.073250/root/var/log/dnf.log
INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz
/bin/tar: Removing leading `/' from member names
INFO: Done(/var/lib/copr-rpmbuild/results/bcftools-1.23-1.el10.src.rpm) Config(child) 6 minutes 33 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
Finish: run
Running RPMResults tool
Package info:
{
    "packages": [
        {
            "name": "bcftools",
            "epoch": null,
            "version": "1.23",
            "release": "1.el10",
            "arch": "src"
        },
        {
            "name": "bcftools",
            "epoch": null,
            "version": "1.23",
            "release": "1.el10",
            "arch": "ppc64le"
        },
        {
            "name": "bcftools-debuginfo",
            "epoch": null,
            "version": "1.23",
            "release": "1.el10",
            "arch": "ppc64le"
        },
        {
            "name": "bcftools-debugsource",
            "epoch": null,
            "version": "1.23",
            "release": "1.el10",
            "arch": "ppc64le"
        }
    ]
}
RPMResults finished