Warning: Permanently added '54.226.104.15' (ED25519) to the list of known hosts.
Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 4734589 --chroot fedora-rawhide-aarch64 --detached
Version: 0.61
PID: 7724
Logging PID: 7725
Task:
{'appstream': True,
 'background': False,
 'bootstrap': 'off',
 'build_id': 4734589,
 'buildroot_pkgs': [],
 'chroot': 'fedora-rawhide-aarch64',
 'enable_net': False,
 'fedora_review': False,
 'git_hash': '6afda861998af09f4997ea0b528245ec7663bd9b',
 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/jaruga/staging/bcftools',
 'isolation': 'default',
 'memory_reqs': 2048,
 'package_name': 'bcftools',
 'package_version': '1.15.1-1.fc38',
 'project_dirname': 'staging',
 'project_name': 'staging',
 'project_owner': 'jaruga',
 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/jaruga/staging/fedora-rawhide-aarch64/',
            'id': 'copr_base',
            'name': 'Copr repository'}],
 'sandbox': 'jaruga/staging--jaruga',
 'source_json': {},
 'source_type': None,
 'submitter': 'jaruga',
 'tags': [],
 'task_id': '4734589-fedora-rawhide-aarch64',
 'timeout': 18000,
 'uses_devel_repo': False,
 'with_opts': [],
 'without_opts': []}

Running: git clone https://copr-dist-git.fedorainfracloud.org/git/jaruga/staging/bcftools /var/lib/copr-rpmbuild/workspace/workdir-6otq62h8/bcftools --depth 500 --no-single-branch --recursive

cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/jaruga/staging/bcftools', '/var/lib/copr-rpmbuild/workspace/workdir-6otq62h8/bcftools', '--depth', '500', '--no-single-branch', '--recursive']
cwd: .
rc: 0
stdout: 
stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-6otq62h8/bcftools'...

Running: git checkout 6afda861998af09f4997ea0b528245ec7663bd9b

cmd: ['git', 'checkout', '6afda861998af09f4997ea0b528245ec7663bd9b']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-6otq62h8/bcftools
rc: 0
stdout: 
stderr: Note: switching to '6afda861998af09f4997ea0b528245ec7663bd9b'.

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 6afda86 automatic import of bcftools

Running: copr-distgit-client sources

cmd: ['copr-distgit-client', 'sources']
cwd: /var/lib/copr-rpmbuild/workspace/workdir-6otq62h8/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-1.15.1.tar.bz2
/usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 6755k  100 6755k    0     0  41.4M      0 --:--:-- --:--:-- --:--:-- 41.4M
INFO: Reading stdout from command: md5sum bcftools-1.15.1.tar.bz2

Running (timeout=18000): unbuffer mock --buildsrpm --spec /var/lib/copr-rpmbuild/workspace/workdir-6otq62h8/bcftools/bcftools.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-6otq62h8/bcftools --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1660580509.310641 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 3.1 starting (python version = 3.10.4, NVR = mock-3.1-1.fc35)...
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-6otq62h8/bcftools/bcftools.spec)  Config(fedora-rawhide-aarch64)
Start: clean chroot
Finish: clean chroot
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1660580509.310641/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
Mock Version: 3.1
INFO: Mock Version: 3.1
Start: dnf install
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

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

Copr repository                                 107 kB/s |  25 kB     00:00    
fedora                                           17 MB/s |  61 MB     00:03    
Dependencies resolved.
================================================================================
 Package                       Arch    Version                     Repo    Size
================================================================================
Installing group/module packages:
 bash                          aarch64 5.1.16-3.fc37               fedora 1.7 M
 bzip2                         aarch64 1.0.8-12.fc37               fedora  52 k
 coreutils                     aarch64 9.1-6.fc37                  fedora 1.0 M
 cpio                          aarch64 2.13-13.fc37                fedora 274 k
 diffutils                     aarch64 3.8-3.fc37                  fedora 376 k
 fedora-release-common         noarch  38-0.2                      fedora  22 k
 findutils                     aarch64 1:4.9.0-2.fc37              fedora 493 k
 gawk                          aarch64 5.1.1-4.fc37                fedora 1.0 M
 glibc-minimal-langpack        aarch64 2.36-1.fc37                 fedora  81 k
 grep                          aarch64 3.7-4.fc37                  fedora 270 k
 gzip                          aarch64 1.12-2.fc37                 fedora 164 k
 info                          aarch64 6.8-4.fc37                  fedora 220 k
 patch                         aarch64 2.7.6-17.fc37               fedora 121 k
 redhat-rpm-config             noarch  227-1.fc37                  fedora  80 k
 rpm-build                     aarch64 4.18.0-0.beta1.4.fc37       fedora  77 k
 sed                           aarch64 4.8-11.fc37                 fedora 304 k
 shadow-utils                  aarch64 2:4.11.1-4.fc37             fedora 1.1 M
 tar                           aarch64 2:1.34-3.fc36               fedora 877 k
 unzip                         aarch64 6.0-58.fc37                 fedora 182 k
 util-linux                    aarch64 2.38.1-1.fc37               fedora 2.3 M
 which                         aarch64 2.21-35.fc37                fedora  41 k
 xz                            aarch64 5.2.5-10.fc37               fedora 223 k
Installing dependencies:
 alternatives                  aarch64 1.19-3.fc37                 fedora  35 k
 ansible-srpm-macros           noarch  1-6.fc37                    fedora 7.5 k
 audit-libs                    aarch64 3.0.8-3.fc37                fedora 116 k
 authselect                    aarch64 1.4.0-3.fc37                fedora 144 k
 authselect-libs               aarch64 1.4.0-3.fc37                fedora 247 k
 basesystem                    noarch  11-14.fc37                  fedora 7.0 k
 binutils                      aarch64 2.38-24.fc38                fedora 5.8 M
 binutils-gold                 aarch64 2.38-24.fc38                fedora 924 k
 bzip2-libs                    aarch64 1.0.8-12.fc37               fedora  43 k
 ca-certificates               noarch  2022.2.54-5.fc37            fedora 829 k
 coreutils-common              aarch64 9.1-6.fc37                  fedora 2.0 M
 cracklib                      aarch64 2.9.6-28.fc36               fedora  93 k
 crypto-policies               noarch  20220802-1.gita99dfd2.fc37  fedora  86 k
 curl                          aarch64 7.84.0-2.fc37               fedora 309 k
 cyrus-sasl-lib                aarch64 2.1.28-7.fc37               fedora 777 k
 debugedit                     aarch64 5.0-5.fc37                  fedora  76 k
 dwz                           aarch64 0.14-7.fc37                 fedora 126 k
 ed                            aarch64 1.18-2.fc37                 fedora  78 k
 efi-srpm-macros               noarch  5-6.fc37                    fedora  22 k
 elfutils                      aarch64 0.187-6.fc37                fedora 522 k
 elfutils-debuginfod-client    aarch64 0.187-6.fc37                fedora  38 k
 elfutils-default-yama-scope   noarch  0.187-6.fc37                fedora  17 k
 elfutils-libelf               aarch64 0.187-6.fc37                fedora 197 k
 elfutils-libs                 aarch64 0.187-6.fc37                fedora 256 k
 fedora-gpg-keys               noarch  38-0.2                      fedora 125 k
 fedora-release                noarch  38-0.2                      fedora  12 k
 fedora-release-identity-basic noarch  38-0.2                      fedora  12 k
 fedora-repos                  noarch  38-0.2                      fedora  10 k
 fedora-repos-rawhide          noarch  38-0.2                      fedora 9.6 k
 file                          aarch64 5.42-4.fc37                 fedora  49 k
 file-libs                     aarch64 5.42-4.fc37                 fedora 674 k
 filesystem                    aarch64 3.18-2.fc37                 fedora 1.1 M
 fonts-srpm-macros             noarch  1:2.0.5-8.fc37              fedora  26 k
 fpc-srpm-macros               noarch  1.3-6.fc37                  fedora 7.7 k
 gdb-minimal                   aarch64 12.1-4.fc37                 fedora 3.5 M
 gdbm-libs                     aarch64 1:1.23-2.fc37               fedora  57 k
 ghc-srpm-macros               noarch  1.5.0-7.fc37                fedora 7.8 k
 glibc                         aarch64 2.36-1.fc37                 fedora 1.8 M
 glibc-common                  aarch64 2.36-1.fc37                 fedora 355 k
 glibc-gconv-extra             aarch64 2.36-1.fc37                 fedora 1.7 M
 gmp                           aarch64 1:6.2.1-3.fc37              fedora 265 k
 gnat-srpm-macros              noarch  4-16.fc37                   fedora 8.3 k
 go-srpm-macros                noarch  3.1.0-4.fc37                fedora  27 k
 jansson                       aarch64 2.13.1-5.fc37               fedora  46 k
 kernel-srpm-macros            noarch  1.0-15.fc37                 fedora 9.4 k
 keyutils-libs                 aarch64 1.6.1-5.fc37                fedora  31 k
 krb5-libs                     aarch64 1.19.2-11.fc37.1            fedora 733 k
 libacl                        aarch64 2.3.1-4.fc37                fedora  23 k
 libarchive                    aarch64 3.6.1-2.fc37                fedora 392 k
 libattr                       aarch64 2.5.1-5.fc37                fedora  18 k
 libblkid                      aarch64 2.38.1-1.fc37               fedora 106 k
 libbrotli                     aarch64 1.0.9-9.fc37                fedora 318 k
 libcap                        aarch64 2.48-5.fc37                 fedora  67 k
 libcap-ng                     aarch64 0.8.3-3.fc37                fedora  33 k
 libcom_err                    aarch64 1.46.5-3.fc37               fedora  25 k
 libcurl                       aarch64 7.84.0-2.fc37               fedora 301 k
 libdb                         aarch64 5.3.28-53.fc37              fedora 737 k
 libeconf                      aarch64 0.4.0-4.fc37                fedora  26 k
 libevent                      aarch64 2.1.12-7.fc37               fedora 254 k
 libfdisk                      aarch64 2.38.1-1.fc37               fedora 155 k
 libffi                        aarch64 3.4.2-9.fc37                fedora  36 k
 libgcc                        aarch64 12.1.1-4.fc38               fedora  92 k
 libgomp                       aarch64 12.1.1-4.fc38               fedora 290 k
 libidn2                       aarch64 2.3.3-2.fc37                fedora 114 k
 libmount                      aarch64 2.38.1-1.fc37               fedora 133 k
 libnghttp2                    aarch64 1.48.0-2.fc37               fedora  73 k
 libnsl2                       aarch64 2.0.0-4.fc37                fedora  30 k
 libpkgconf                    aarch64 1.8.0-3.fc37                fedora  36 k
 libpsl                        aarch64 0.21.1-6.fc37               fedora  63 k
 libpwquality                  aarch64 1.4.4-11.fc37               fedora 116 k
 libselinux                    aarch64 3.4-5.fc37                  fedora  85 k
 libsemanage                   aarch64 3.4-5.fc37                  fedora 116 k
 libsepol                      aarch64 3.4-3.fc37                  fedora 310 k
 libsigsegv                    aarch64 2.14-3.fc37                 fedora  27 k
 libsmartcols                  aarch64 2.38.1-1.fc37               fedora  63 k
 libssh                        aarch64 0.9.6-5.fc37                fedora 202 k
 libssh-config                 noarch  0.9.6-5.fc37                fedora 7.8 k
 libstdc++                     aarch64 12.1.1-4.fc38               fedora 760 k
 libtasn1                      aarch64 4.18.0-3.fc37               fedora  73 k
 libtirpc                      aarch64 1.3.3-0.fc37                fedora  94 k
 libunistring                  aarch64 1.0-2.fc37                  fedora 543 k
 libutempter                   aarch64 1.2.1-7.fc37                fedora  26 k
 libuuid                       aarch64 2.38.1-1.fc37               fedora  28 k
 libverto                      aarch64 0.3.2-4.fc37                fedora  21 k
 libxcrypt                     aarch64 4.4.28-3.fc38               fedora 121 k
 libxml2                       aarch64 2.9.14-3.fc37               fedora 734 k
 libzstd                       aarch64 1.5.2-3.fc37                fedora 267 k
 lua-libs                      aarch64 5.4.4-4.fc37                fedora 213 k
 lua-srpm-macros               noarch  1-7.fc37                    fedora 8.8 k
 lz4-libs                      aarch64 1.9.3-5.fc37                fedora  70 k
 mpfr                          aarch64 4.1.0-10.fc37               fedora 240 k
 ncurses-base                  noarch  6.3-3.20220501.fc37         fedora  86 k
 ncurses-libs                  aarch64 6.3-3.20220501.fc37         fedora 318 k
 nim-srpm-macros               noarch  3-7.fc37                    fedora 8.4 k
 ocaml-srpm-macros             noarch  7-2.fc37                    fedora  13 k
 openblas-srpm-macros          noarch  2-12.fc37                   fedora 7.5 k
 openldap                      aarch64 2.6.2-5.fc38                fedora 250 k
 openssl-libs                  aarch64 1:3.0.5-2.fc37              fedora 2.0 M
 p11-kit                       aarch64 0.24.1-3.fc37               fedora 361 k
 p11-kit-trust                 aarch64 0.24.1-3.fc37               fedora 138 k
 package-notes-srpm-macros     noarch  0.4-16.fc37                 fedora  11 k
 pam                           aarch64 1.5.2-14.fc37               fedora 567 k
 pam-libs                      aarch64 1.5.2-14.fc37               fedora  58 k
 pcre                          aarch64 8.45-1.fc37.2               fedora 184 k
 pcre2                         aarch64 10.40-1.fc37.1              fedora 219 k
 pcre2-syntax                  noarch  10.40-1.fc37.1              fedora 142 k
 perl-srpm-macros              noarch  1-46.fc37                   fedora 8.3 k
 pkgconf                       aarch64 1.8.0-3.fc37                fedora  41 k
 pkgconf-m4                    noarch  1.8.0-3.fc37                fedora  14 k
 pkgconf-pkg-config            aarch64 1.8.0-3.fc37                fedora  10 k
 popt                          aarch64 1.19~rc1-3.fc37             fedora  65 k
 publicsuffix-list-dafsa       noarch  20210518-5.fc37             fedora  58 k
 python-srpm-macros            noarch  3.11-4.fc37                 fedora  25 k
 qt5-srpm-macros               noarch  5.15.5-2.fc37               fedora 8.1 k
 readline                      aarch64 8.1-7.fc37                  fedora 209 k
 rpm                           aarch64 4.18.0-0.beta1.4.fc37       fedora 565 k
 rpm-build-libs                aarch64 4.18.0-0.beta1.4.fc37       fedora  90 k
 rpm-libs                      aarch64 4.18.0-0.beta1.4.fc37       fedora 311 k
 rpmautospec-rpm-macros        noarch  0.3.0-1.fc37                fedora 8.8 k
 rust-srpm-macros              noarch  22-1.fc37                   fedora 9.5 k
 setup                         noarch  2.14.1-2.fc37               fedora 149 k
 sqlite-libs                   aarch64 3.39.2-2.fc37               fedora 658 k
 systemd-libs                  aarch64 251.4-51.fc37               fedora 591 k
 tzdata                        noarch  2022b-1.fc38                fedora 717 k
 util-linux-core               aarch64 2.38.1-1.fc37               fedora 471 k
 xxhash-libs                   aarch64 0.8.1-3.fc37                fedora  33 k
 xz-libs                       aarch64 5.2.5-10.fc37               fedora  90 k
 zip                           aarch64 3.0-33.fc37                 fedora 256 k
 zlib                          aarch64 1.2.12-4.fc37               fedora  93 k
 zstd                          aarch64 1.5.2-3.fc37                fedora 412 k
Installing Groups:
 Buildsystem building group                                                    

Transaction Summary
================================================================================
Install  152 Packages

Total download size: 50 M
Installed size: 204 M
Downloading Packages:
(1/152): ansible-srpm-macros-1-6.fc37.noarch.rp 156 kB/s | 7.5 kB     00:00    
(2/152): alternatives-1.19-3.fc37.aarch64.rpm   691 kB/s |  35 kB     00:00    
(3/152): audit-libs-3.0.8-3.fc37.aarch64.rpm    2.2 MB/s | 116 kB     00:00    
(4/152): authselect-1.4.0-3.fc37.aarch64.rpm     15 MB/s | 144 kB     00:00    
(5/152): basesystem-11-14.fc37.noarch.rpm       1.2 MB/s | 7.0 kB     00:00    
(6/152): authselect-libs-1.4.0-3.fc37.aarch64.r  18 MB/s | 247 kB     00:00    
(7/152): binutils-2.38-24.fc38.aarch64.rpm       98 MB/s | 5.8 MB     00:00    
(8/152): bzip2-1.0.8-12.fc37.aarch64.rpm        7.8 MB/s |  52 kB     00:00    
(9/152): binutils-gold-2.38-24.fc38.aarch64.rpm  13 MB/s | 924 kB     00:00    
(10/152): bzip2-libs-1.0.8-12.fc37.aarch64.rpm  2.4 MB/s |  43 kB     00:00    
(11/152): ca-certificates-2022.2.54-5.fc37.noar  49 MB/s | 829 kB     00:00    
(12/152): coreutils-common-9.1-6.fc37.aarch64.r  47 MB/s | 2.0 MB     00:00    
(13/152): cpio-2.13-13.fc37.aarch64.rpm          33 MB/s | 274 kB     00:00    
(14/152): cracklib-2.9.6-28.fc36.aarch64.rpm     11 MB/s |  93 kB     00:00    
(15/152): crypto-policies-20220802-1.gita99dfd2 7.9 MB/s |  86 kB     00:00    
(16/152): curl-7.84.0-2.fc37.aarch64.rpm         26 MB/s | 309 kB     00:00    
(17/152): cyrus-sasl-lib-2.1.28-7.fc37.aarch64.  56 MB/s | 777 kB     00:00    
(18/152): debugedit-5.0-5.fc37.aarch64.rpm       23 MB/s |  76 kB     00:00    
(19/152): bash-5.1.16-3.fc37.aarch64.rpm        8.0 MB/s | 1.7 MB     00:00    
(20/152): diffutils-3.8-3.fc37.aarch64.rpm       37 MB/s | 376 kB     00:00    
(21/152): dwz-0.14-7.fc37.aarch64.rpm            29 MB/s | 126 kB     00:00    
(22/152): ed-1.18-2.fc37.aarch64.rpm             11 MB/s |  78 kB     00:00    
(23/152): efi-srpm-macros-5-6.fc37.noarch.rpm   3.0 MB/s |  22 kB     00:00    
(24/152): elfutils-0.187-6.fc37.aarch64.rpm      36 MB/s | 522 kB     00:00    
(25/152): elfutils-debuginfod-client-0.187-6.fc 2.5 MB/s |  38 kB     00:00    
(26/152): elfutils-default-yama-scope-0.187-6.f 554 kB/s |  17 kB     00:00    
(27/152): elfutils-libelf-0.187-6.fc37.aarch64. 6.2 MB/s | 197 kB     00:00    
(28/152): fedora-gpg-keys-38-0.2.noarch.rpm     4.6 MB/s | 125 kB     00:00    
(29/152): elfutils-libs-0.187-6.fc37.aarch64.rp 8.1 MB/s | 256 kB     00:00    
(30/152): fedora-release-38-0.2.noarch.rpm      478 kB/s |  12 kB     00:00    
(31/152): coreutils-9.1-6.fc37.aarch64.rpm      4.4 MB/s | 1.0 MB     00:00    
(32/152): fedora-release-common-38-0.2.noarch.r 701 kB/s |  22 kB     00:00    
(33/152): fedora-release-identity-basic-38-0.2. 982 kB/s |  12 kB     00:00    
(34/152): fedora-repos-38-0.2.noarch.rpm        946 kB/s |  10 kB     00:00    
(35/152): fedora-repos-rawhide-38-0.2.noarch.rp 1.2 MB/s | 9.6 kB     00:00    
(36/152): file-5.42-4.fc37.aarch64.rpm          7.6 MB/s |  49 kB     00:00    
(37/152): filesystem-3.18-2.fc37.aarch64.rpm     53 MB/s | 1.1 MB     00:00    
(38/152): fonts-srpm-macros-2.0.5-8.fc37.noarch 4.7 MB/s |  26 kB     00:00    
(39/152): fpc-srpm-macros-1.3-6.fc37.noarch.rpm 1.1 MB/s | 7.7 kB     00:00    
(40/152): gawk-5.1.1-4.fc37.aarch64.rpm          33 MB/s | 1.0 MB     00:00    
(41/152): findutils-4.9.0-2.fc37.aarch64.rpm    7.4 MB/s | 493 kB     00:00    
(42/152): gdbm-libs-1.23-2.fc37.aarch64.rpm     3.5 MB/s |  57 kB     00:00    
(43/152): ghc-srpm-macros-1.5.0-7.fc37.noarch.r 904 kB/s | 7.8 kB     00:00    
(44/152): gdb-minimal-12.1-4.fc37.aarch64.rpm    57 MB/s | 3.5 MB     00:00    
(45/152): glibc-2.36-1.fc37.aarch64.rpm          39 MB/s | 1.8 MB     00:00    
(46/152): glibc-common-2.36-1.fc37.aarch64.rpm   23 MB/s | 355 kB     00:00    
(47/152): glibc-minimal-langpack-2.36-1.fc37.aa 5.6 MB/s |  81 kB     00:00    
(48/152): glibc-gconv-extra-2.36-1.fc37.aarch64  54 MB/s | 1.7 MB     00:00    
(49/152): gmp-6.2.1-3.fc37.aarch64.rpm           23 MB/s | 265 kB     00:00    
(50/152): file-libs-5.42-4.fc37.aarch64.rpm     3.6 MB/s | 674 kB     00:00    
(51/152): gnat-srpm-macros-4-16.fc37.noarch.rpm 1.6 MB/s | 8.3 kB     00:00    
(52/152): go-srpm-macros-3.1.0-4.fc37.noarch.rp 4.9 MB/s |  27 kB     00:00    
(53/152): grep-3.7-4.fc37.aarch64.rpm            34 MB/s | 270 kB     00:00    
(54/152): info-6.8-4.fc37.aarch64.rpm            23 MB/s | 220 kB     00:00    
(55/152): jansson-2.13.1-5.fc37.aarch64.rpm     7.3 MB/s |  46 kB     00:00    
(56/152): kernel-srpm-macros-1.0-15.fc37.noarch 1.2 MB/s | 9.4 kB     00:00    
(57/152): keyutils-libs-1.6.1-5.fc37.aarch64.rp 3.7 MB/s |  31 kB     00:00    
(58/152): krb5-libs-1.19.2-11.fc37.1.aarch64.rp  59 MB/s | 733 kB     00:00    
(59/152): gzip-1.12-2.fc37.aarch64.rpm          4.7 MB/s | 164 kB     00:00    
(60/152): libarchive-3.6.1-2.fc37.aarch64.rpm    40 MB/s | 392 kB     00:00    
(61/152): libattr-2.5.1-5.fc37.aarch64.rpm      2.1 MB/s |  18 kB     00:00    
(62/152): libacl-2.3.1-4.fc37.aarch64.rpm       1.2 MB/s |  23 kB     00:00    
(63/152): libblkid-2.38.1-1.fc37.aarch64.rpm     15 MB/s | 106 kB     00:00    
(64/152): libbrotli-1.0.9-9.fc37.aarch64.rpm     40 MB/s | 318 kB     00:00    
(65/152): libcap-2.48-5.fc37.aarch64.rpm        7.4 MB/s |  67 kB     00:00    
(66/152): libcap-ng-0.8.3-3.fc37.aarch64.rpm    7.3 MB/s |  33 kB     00:00    
(67/152): libcom_err-1.46.5-3.fc37.aarch64.rpm  4.3 MB/s |  25 kB     00:00    
(68/152): libcurl-7.84.0-2.fc37.aarch64.rpm      30 MB/s | 301 kB     00:00    
(69/152): libeconf-0.4.0-4.fc37.aarch64.rpm     4.1 MB/s |  26 kB     00:00    
(70/152): libfdisk-2.38.1-1.fc37.aarch64.rpm     37 MB/s | 155 kB     00:00    
(71/152): libevent-2.1.12-7.fc37.aarch64.rpm     25 MB/s | 254 kB     00:00    
(72/152): libffi-3.4.2-9.fc37.aarch64.rpm       3.7 MB/s |  36 kB     00:00    
(73/152): libgcc-12.1.1-4.fc38.aarch64.rpm       12 MB/s |  92 kB     00:00    
(74/152): libidn2-2.3.3-2.fc37.aarch64.rpm       15 MB/s | 114 kB     00:00    
(75/152): libgomp-12.1.1-4.fc38.aarch64.rpm      20 MB/s | 290 kB     00:00    
(76/152): libmount-2.38.1-1.fc37.aarch64.rpm     16 MB/s | 133 kB     00:00    
(77/152): libnghttp2-1.48.0-2.fc37.aarch64.rpm  6.4 MB/s |  73 kB     00:00    
(78/152): libnsl2-2.0.0-4.fc37.aarch64.rpm      3.1 MB/s |  30 kB     00:00    
(79/152): libpkgconf-1.8.0-3.fc37.aarch64.rpm   6.3 MB/s |  36 kB     00:00    
(80/152): libpsl-0.21.1-6.fc37.aarch64.rpm       14 MB/s |  63 kB     00:00    
(81/152): libpwquality-1.4.4-11.fc37.aarch64.rp  32 MB/s | 116 kB     00:00    
(82/152): libselinux-3.4-5.fc37.aarch64.rpm      17 MB/s |  85 kB     00:00    
(83/152): libsemanage-3.4-5.fc37.aarch64.rpm     19 MB/s | 116 kB     00:00    
(84/152): libdb-5.3.28-53.fc37.aarch64.rpm       10 MB/s | 737 kB     00:00    
(85/152): libsepol-3.4-3.fc37.aarch64.rpm        37 MB/s | 310 kB     00:00    
(86/152): libsigsegv-2.14-3.fc37.aarch64.rpm    4.2 MB/s |  27 kB     00:00    
(87/152): libsmartcols-2.38.1-1.fc37.aarch64.rp  16 MB/s |  63 kB     00:00    
(88/152): libssh-0.9.6-5.fc37.aarch64.rpm        35 MB/s | 202 kB     00:00    
(89/152): libssh-config-0.9.6-5.fc37.noarch.rpm 1.4 MB/s | 7.8 kB     00:00    
(90/152): libtasn1-4.18.0-3.fc37.aarch64.rpm     16 MB/s |  73 kB     00:00    
(91/152): libtirpc-1.3.3-0.fc37.aarch64.rpm      17 MB/s |  94 kB     00:00    
(92/152): libutempter-1.2.1-7.fc37.aarch64.rpm  5.7 MB/s |  26 kB     00:00    
(93/152): libunistring-1.0-2.fc37.aarch64.rpm    31 MB/s | 543 kB     00:00    
(94/152): libuuid-2.38.1-1.fc37.aarch64.rpm     2.1 MB/s |  28 kB     00:00    
(95/152): libverto-0.3.2-4.fc37.aarch64.rpm     2.3 MB/s |  21 kB     00:00    
(96/152): libxcrypt-4.4.28-3.fc38.aarch64.rpm   7.7 MB/s | 121 kB     00:00    
(97/152): libxml2-2.9.14-3.fc37.aarch64.rpm      43 MB/s | 734 kB     00:00    
(98/152): libzstd-1.5.2-3.fc37.aarch64.rpm       27 MB/s | 267 kB     00:00    
(99/152): lua-srpm-macros-1-7.fc37.noarch.rpm   2.5 MB/s | 8.8 kB     00:00    
(100/152): lua-libs-5.4.4-4.fc37.aarch64.rpm     17 MB/s | 213 kB     00:00    
(101/152): lz4-libs-1.9.3-5.fc37.aarch64.rpm     11 MB/s |  70 kB     00:00    
(102/152): mpfr-4.1.0-10.fc37.aarch64.rpm        42 MB/s | 240 kB     00:00    
(103/152): ncurses-base-6.3-3.20220501.fc37.noa  15 MB/s |  86 kB     00:00    
(104/152): ncurses-libs-6.3-3.20220501.fc37.aar  32 MB/s | 318 kB     00:00    
(105/152): nim-srpm-macros-3-7.fc37.noarch.rpm  1.6 MB/s | 8.4 kB     00:00    
(106/152): libstdc++-12.1.1-4.fc38.aarch64.rpm  8.5 MB/s | 760 kB     00:00    
(107/152): ocaml-srpm-macros-7-2.fc37.noarch.rp 3.9 MB/s |  13 kB     00:00    
(108/152): openblas-srpm-macros-2-12.fc37.noarc 951 kB/s | 7.5 kB     00:00    
(109/152): p11-kit-0.24.1-3.fc37.aarch64.rpm     30 MB/s | 361 kB     00:00    
(110/152): openldap-2.6.2-5.fc38.aarch64.rpm     11 MB/s | 250 kB     00:00    
(111/152): openssl-libs-3.0.5-2.fc37.aarch64.rp  56 MB/s | 2.0 MB     00:00    
(112/152): package-notes-srpm-macros-0.4-16.fc3 851 kB/s |  11 kB     00:00    
(113/152): p11-kit-trust-0.24.1-3.fc37.aarch64. 7.1 MB/s | 138 kB     00:00    
(114/152): pam-libs-1.5.2-14.fc37.aarch64.rpm   9.8 MB/s |  58 kB     00:00    
(115/152): patch-2.7.6-17.fc37.aarch64.rpm       17 MB/s | 121 kB     00:00    
(116/152): pam-1.5.2-14.fc37.aarch64.rpm         33 MB/s | 567 kB     00:00    
(117/152): pcre-8.45-1.fc37.2.aarch64.rpm        16 MB/s | 184 kB     00:00    
(118/152): perl-srpm-macros-1-46.fc37.noarch.rp 1.6 MB/s | 8.3 kB     00:00    
(119/152): pcre2-10.40-1.fc37.1.aarch64.rpm      13 MB/s | 219 kB     00:00    
(120/152): pcre2-syntax-10.40-1.fc37.1.noarch.r  11 MB/s | 142 kB     00:00    
(121/152): pkgconf-1.8.0-3.fc37.aarch64.rpm     7.0 MB/s |  41 kB     00:00    
(122/152): pkgconf-m4-1.8.0-3.fc37.noarch.rpm   3.4 MB/s |  14 kB     00:00    
(123/152): pkgconf-pkg-config-1.8.0-3.fc37.aarc 1.7 MB/s |  10 kB     00:00    
(124/152): popt-1.19~rc1-3.fc37.aarch64.rpm     9.6 MB/s |  65 kB     00:00    
(125/152): python-srpm-macros-3.11-4.fc37.noarc 5.1 MB/s |  25 kB     00:00    
(126/152): qt5-srpm-macros-5.15.5-2.fc37.noarch 2.0 MB/s | 8.1 kB     00:00    
(127/152): publicsuffix-list-dafsa-20210518-5.f 4.7 MB/s |  58 kB     00:00    
(128/152): redhat-rpm-config-227-1.fc37.noarch.  25 MB/s |  80 kB     00:00    
(129/152): readline-8.1-7.fc37.aarch64.rpm       28 MB/s | 209 kB     00:00    
(130/152): rpm-build-4.18.0-0.beta1.4.fc37.aarc  15 MB/s |  77 kB     00:00    
(131/152): rpm-4.18.0-0.beta1.4.fc37.aarch64.rp  49 MB/s | 565 kB     00:00    
(132/152): rpm-build-libs-4.18.0-0.beta1.4.fc37  11 MB/s |  90 kB     00:00    
(133/152): rpmautospec-rpm-macros-0.3.0-1.fc37. 1.7 MB/s | 8.8 kB     00:00    
(134/152): rpm-libs-4.18.0-0.beta1.4.fc37.aarch  26 MB/s | 311 kB     00:00    
(135/152): rust-srpm-macros-22-1.fc37.noarch.rp 1.2 MB/s | 9.5 kB     00:00    
(136/152): sed-4.8-11.fc37.aarch64.rpm           33 MB/s | 304 kB     00:00    
(137/152): setup-2.14.1-2.fc37.noarch.rpm        18 MB/s | 149 kB     00:00    
(138/152): sqlite-libs-3.39.2-2.fc37.aarch64.rp  44 MB/s | 658 kB     00:00    
(139/152): systemd-libs-251.4-51.fc37.aarch64.r  32 MB/s | 591 kB     00:00    
(140/152): tar-1.34-3.fc36.aarch64.rpm           94 MB/s | 877 kB     00:00    
(141/152): unzip-6.0-58.fc37.aarch64.rpm         27 MB/s | 182 kB     00:00    
(142/152): tzdata-2022b-1.fc38.noarch.rpm        40 MB/s | 717 kB     00:00    
(143/152): util-linux-core-2.38.1-1.fc37.aarch6  23 MB/s | 471 kB     00:00    
(144/152): which-2.21-35.fc37.aarch64.rpm       3.6 MB/s |  41 kB     00:00    
(145/152): util-linux-2.38.1-1.fc37.aarch64.rpm  51 MB/s | 2.3 MB     00:00    
(146/152): xxhash-libs-0.8.1-3.fc37.aarch64.rpm 2.9 MB/s |  33 kB     00:00    
(147/152): xz-5.2.5-10.fc37.aarch64.rpm          26 MB/s | 223 kB     00:00    
(148/152): xz-libs-5.2.5-10.fc37.aarch64.rpm    9.7 MB/s |  90 kB     00:00    
(149/152): zip-3.0-33.fc37.aarch64.rpm           52 MB/s | 256 kB     00:00    
(150/152): zlib-1.2.12-4.fc37.aarch64.rpm        17 MB/s |  93 kB     00:00    
(151/152): zstd-1.5.2-3.fc37.aarch64.rpm         21 MB/s | 412 kB     00:00    
(152/152): shadow-utils-4.11.1-4.fc37.aarch64.r 8.7 MB/s | 1.1 MB     00:00    
--------------------------------------------------------------------------------
Total                                            43 MB/s |  50 MB     00:01     
fedora                                          1.6 MB/s | 1.6 kB     00:00    
Importing GPG key 0xEB10B464:
 Userid     : "Fedora (38) <fedora-38-primary@fedoraproject.org>"
 Fingerprint: 6A51 BBAB BA3D 5467 B617 1221 809A 8D7C EB10 B464
 From       : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-38-primary
Key imported successfully
fedora                                          1.6 MB/s | 1.6 kB     00:00    
GPG key at file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-38-primary (0xEB10B464) is already installed
fedora                                          1.6 MB/s | 1.6 kB     00:00    
Importing GPG key 0x5323552A:
 Userid     : "Fedora (37) <fedora-37-primary@fedoraproject.org>"
 Fingerprint: ACB5 EE4E 831C 74BB 7C16 8D27 F55A D3FB 5323 552A
 From       : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-37-primary
Key imported successfully
Running transaction check
Transaction check succeeded.
Running transaction test
Transaction test succeeded.
Running transaction
  Running scriptlet: filesystem-3.18-2.fc37.aarch64                         1/1 
  Preparing        :                                                        1/1 
  Installing       : libgcc-12.1.1-4.fc38.aarch64                         1/152 
  Running scriptlet: libgcc-12.1.1-4.fc38.aarch64                         1/152 
  Installing       : crypto-policies-20220802-1.gita99dfd2.fc37.noarc     2/152 
  Running scriptlet: crypto-policies-20220802-1.gita99dfd2.fc37.noarc     2/152 
  Installing       : fedora-release-identity-basic-38-0.2.noarch          3/152 
  Installing       : tzdata-2022b-1.fc38.noarch                           4/152 
  Installing       : rust-srpm-macros-22-1.fc37.noarch                    5/152 
  Installing       : qt5-srpm-macros-5.15.5-2.fc37.noarch                 6/152 
  Installing       : publicsuffix-list-dafsa-20210518-5.fc37.noarch       7/152 
  Installing       : pkgconf-m4-1.8.0-3.fc37.noarch                       8/152 
  Installing       : perl-srpm-macros-1-46.fc37.noarch                    9/152 
  Installing       : pcre2-syntax-10.40-1.fc37.1.noarch                  10/152 
  Installing       : openblas-srpm-macros-2-12.fc37.noarch               11/152 
  Installing       : ocaml-srpm-macros-7-2.fc37.noarch                   12/152 
  Installing       : nim-srpm-macros-3-7.fc37.noarch                     13/152 
  Installing       : ncurses-base-6.3-3.20220501.fc37.noarch             14/152 
  Installing       : libssh-config-0.9.6-5.fc37.noarch                   15/152 
  Installing       : kernel-srpm-macros-1.0-15.fc37.noarch               16/152 
  Installing       : gnat-srpm-macros-4-16.fc37.noarch                   17/152 
  Installing       : ghc-srpm-macros-1.5.0-7.fc37.noarch                 18/152 
  Installing       : fpc-srpm-macros-1.3-6.fc37.noarch                   19/152 
  Installing       : fedora-gpg-keys-38-0.2.noarch                       20/152 
  Installing       : fedora-release-38-0.2.noarch                        21/152 
  Installing       : fedora-release-common-38-0.2.noarch                 22/152 
  Installing       : fedora-repos-rawhide-38-0.2.noarch                  23/152 
  Installing       : fedora-repos-38-0.2.noarch                          24/152 
  Installing       : setup-2.14.1-2.fc37.noarch                          25/152 
warning: /etc/hosts created as /etc/hosts.rpmnew

  Running scriptlet: setup-2.14.1-2.fc37.noarch                          25/152 
  Installing       : filesystem-3.18-2.fc37.aarch64                      26/152 
  Installing       : basesystem-11-14.fc37.noarch                        27/152 
  Installing       : glibc-gconv-extra-2.36-1.fc37.aarch64               28/152 
  Running scriptlet: glibc-gconv-extra-2.36-1.fc37.aarch64               28/152 
  Installing       : glibc-minimal-langpack-2.36-1.fc37.aarch64          29/152 
  Installing       : glibc-common-2.36-1.fc37.aarch64                    30/152 
  Running scriptlet: glibc-2.36-1.fc37.aarch64                           31/152 
  Installing       : glibc-2.36-1.fc37.aarch64                           31/152 
  Running scriptlet: glibc-2.36-1.fc37.aarch64                           31/152 
  Installing       : ncurses-libs-6.3-3.20220501.fc37.aarch64            32/152 
  Installing       : bash-5.1.16-3.fc37.aarch64                          33/152 
  Running scriptlet: bash-5.1.16-3.fc37.aarch64                          33/152 
  Installing       : zlib-1.2.12-4.fc37.aarch64                          34/152 
  Installing       : xz-libs-5.2.5-10.fc37.aarch64                       35/152 
  Installing       : bzip2-libs-1.0.8-12.fc37.aarch64                    36/152 
  Installing       : elfutils-libelf-0.187-6.fc37.aarch64                37/152 
  Installing       : libstdc++-12.1.1-4.fc38.aarch64                     38/152 
  Installing       : libuuid-2.38.1-1.fc37.aarch64                       39/152 
  Installing       : libzstd-1.5.2-3.fc37.aarch64                        40/152 
  Installing       : popt-1.19~rc1-3.fc37.aarch64                        41/152 
  Installing       : libblkid-2.38.1-1.fc37.aarch64                      42/152 
  Installing       : readline-8.1-7.fc37.aarch64                         43/152 
  Installing       : gmp-1:6.2.1-3.fc37.aarch64                          44/152 
  Installing       : libattr-2.5.1-5.fc37.aarch64                        45/152 
  Installing       : libacl-2.3.1-4.fc37.aarch64                         46/152 
  Installing       : libcap-2.48-5.fc37.aarch64                          47/152 
  Installing       : libxcrypt-4.4.28-3.fc38.aarch64                     48/152 
  Installing       : lz4-libs-1.9.3-5.fc37.aarch64                       49/152 
  Installing       : systemd-libs-251.4-51.fc37.aarch64                  50/152 
  Installing       : mpfr-4.1.0-10.fc37.aarch64                          51/152 
  Installing       : dwz-0.14-7.fc37.aarch64                             52/152 
  Installing       : unzip-6.0-58.fc37.aarch64                           53/152 
  Installing       : file-libs-5.42-4.fc37.aarch64                       54/152 
  Installing       : file-5.42-4.fc37.aarch64                            55/152 
  Installing       : sqlite-libs-3.39.2-2.fc37.aarch64                   56/152 
  Installing       : alternatives-1.19-3.fc37.aarch64                    57/152 
  Installing       : libcap-ng-0.8.3-3.fc37.aarch64                      58/152 
  Installing       : audit-libs-3.0.8-3.fc37.aarch64                     59/152 
  Installing       : libcom_err-1.46.5-3.fc37.aarch64                    60/152 
  Installing       : libeconf-0.4.0-4.fc37.aarch64                       61/152 
  Installing       : pam-libs-1.5.2-14.fc37.aarch64                      62/152 
  Installing       : libsepol-3.4-3.fc37.aarch64                         63/152 
  Installing       : libsmartcols-2.38.1-1.fc37.aarch64                  64/152 
  Installing       : libunistring-1.0-2.fc37.aarch64                     65/152 
  Installing       : libidn2-2.3.3-2.fc37.aarch64                        66/152 
  Installing       : lua-libs-5.4.4-4.fc37.aarch64                       67/152 
  Installing       : libpsl-0.21.1-6.fc37.aarch64                        68/152 
  Installing       : zip-3.0-33.fc37.aarch64                             69/152 
  Installing       : zstd-1.5.2-3.fc37.aarch64                           70/152 
  Installing       : libfdisk-2.38.1-1.fc37.aarch64                      71/152 
  Installing       : bzip2-1.0.8-12.fc37.aarch64                         72/152 
  Installing       : libxml2-2.9.14-3.fc37.aarch64                       73/152 
  Installing       : ed-1.18-2.fc37.aarch64                              74/152 
  Installing       : elfutils-default-yama-scope-0.187-6.fc37.noarch     75/152 
  Running scriptlet: elfutils-default-yama-scope-0.187-6.fc37.noarch     75/152 
  Installing       : package-notes-srpm-macros-0.4-16.fc37.noarch        76/152 
  Installing       : cpio-2.13-13.fc37.aarch64                           77/152 
  Installing       : diffutils-3.8-3.fc37.aarch64                        78/152 
  Installing       : gdbm-libs-1:1.23-2.fc37.aarch64                     79/152 
  Installing       : cyrus-sasl-lib-2.1.28-7.fc37.aarch64                80/152 
  Installing       : jansson-2.13.1-5.fc37.aarch64                       81/152 
  Installing       : keyutils-libs-1.6.1-5.fc37.aarch64                  82/152 
  Installing       : libbrotli-1.0.9-9.fc37.aarch64                      83/152 
  Installing       : libdb-5.3.28-53.fc37.aarch64                        84/152 
  Installing       : libffi-3.4.2-9.fc37.aarch64                         85/152 
  Installing       : p11-kit-0.24.1-3.fc37.aarch64                       86/152 
  Installing       : libgomp-12.1.1-4.fc38.aarch64                       87/152 
  Installing       : libnghttp2-1.48.0-2.fc37.aarch64                    88/152 
  Installing       : libpkgconf-1.8.0-3.fc37.aarch64                     89/152 
  Installing       : pkgconf-1.8.0-3.fc37.aarch64                        90/152 
  Installing       : pkgconf-pkg-config-1.8.0-3.fc37.aarch64             91/152 
  Installing       : libsigsegv-2.14-3.fc37.aarch64                      92/152 
  Installing       : gawk-5.1.1-4.fc37.aarch64                           93/152 
  Installing       : libtasn1-4.18.0-3.fc37.aarch64                      94/152 
  Installing       : p11-kit-trust-0.24.1-3.fc37.aarch64                 95/152 
  Running scriptlet: p11-kit-trust-0.24.1-3.fc37.aarch64                 95/152 
  Installing       : libverto-0.3.2-4.fc37.aarch64                       96/152 
  Installing       : pcre-8.45-1.fc37.2.aarch64                          97/152 
  Installing       : grep-3.7-4.fc37.aarch64                             98/152 
  Installing       : xz-5.2.5-10.fc37.aarch64                            99/152 
  Installing       : pcre2-10.40-1.fc37.1.aarch64                       100/152 
  Installing       : libselinux-3.4-5.fc37.aarch64                      101/152 
  Installing       : sed-4.8-11.fc37.aarch64                            102/152 
  Installing       : findutils-1:4.9.0-2.fc37.aarch64                   103/152 
  Installing       : libmount-2.38.1-1.fc37.aarch64                     104/152 
  Installing       : util-linux-core-2.38.1-1.fc37.aarch64              105/152 
  Installing       : libsemanage-3.4-5.fc37.aarch64                     106/152 
  Installing       : shadow-utils-2:4.11.1-4.fc37.aarch64               107/152 
  Running scriptlet: libutempter-1.2.1-7.fc37.aarch64                   108/152 
  Installing       : libutempter-1.2.1-7.fc37.aarch64                   108/152 
  Installing       : patch-2.7.6-17.fc37.aarch64                        109/152 
  Installing       : tar-2:1.34-3.fc36.aarch64                          110/152 
  Installing       : xxhash-libs-0.8.1-3.fc37.aarch64                   111/152 
  Installing       : coreutils-common-9.1-6.fc37.aarch64                112/152 
  Installing       : openssl-libs-1:3.0.5-2.fc37.aarch64                113/152 
  Installing       : coreutils-9.1-6.fc37.aarch64                       114/152 
  Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch            115/152 
  Installing       : ca-certificates-2022.2.54-5.fc37.noarch            115/152 
  Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch            115/152 
  Installing       : krb5-libs-1.19.2-11.fc37.1.aarch64                 116/152 
  Installing       : libtirpc-1.3.3-0.fc37.aarch64                      117/152 
  Running scriptlet: authselect-libs-1.4.0-3.fc37.aarch64               118/152 
  Installing       : authselect-libs-1.4.0-3.fc37.aarch64               118/152 
  Installing       : gzip-1.12-2.fc37.aarch64                           119/152 
  Installing       : cracklib-2.9.6-28.fc36.aarch64                     120/152 
  Installing       : libpwquality-1.4.4-11.fc37.aarch64                 121/152 
  Installing       : authselect-1.4.0-3.fc37.aarch64                    122/152 
  Installing       : libnsl2-2.0.0-4.fc37.aarch64                       123/152 
  Installing       : pam-1.5.2-14.fc37.aarch64                          124/152 
  Installing       : libssh-0.9.6-5.fc37.aarch64                        125/152 
  Installing       : libarchive-3.6.1-2.fc37.aarch64                    126/152 
  Installing       : libevent-2.1.12-7.fc37.aarch64                     127/152 
  Installing       : openldap-2.6.2-5.fc38.aarch64                      128/152 
  Installing       : libcurl-7.84.0-2.fc37.aarch64                      129/152 
  Installing       : elfutils-libs-0.187-6.fc37.aarch64                 130/152 
  Installing       : elfutils-debuginfod-client-0.187-6.fc37.aarch64    131/152 
  Installing       : binutils-gold-2.38-24.fc38.aarch64                 132/152 
  Installing       : binutils-2.38-24.fc38.aarch64                      133/152 
  Running scriptlet: binutils-2.38-24.fc38.aarch64                      133/152 
  Installing       : elfutils-0.187-6.fc37.aarch64                      134/152 
  Installing       : gdb-minimal-12.1-4.fc37.aarch64                    135/152 
  Installing       : debugedit-5.0-5.fc37.aarch64                       136/152 
  Installing       : curl-7.84.0-2.fc37.aarch64                         137/152 
  Running scriptlet: rpm-4.18.0-0.beta1.4.fc37.aarch64                  138/152 
  Installing       : rpm-4.18.0-0.beta1.4.fc37.aarch64                  138/152 
  Installing       : rpm-libs-4.18.0-0.beta1.4.fc37.aarch64             139/152 
  Installing       : rpm-build-libs-4.18.0-0.beta1.4.fc37.aarch64       140/152 
  Installing       : efi-srpm-macros-5-6.fc37.noarch                    141/152 
  Installing       : lua-srpm-macros-1-7.fc37.noarch                    142/152 
  Installing       : rpmautospec-rpm-macros-0.3.0-1.fc37.noarch         143/152 
  Installing       : ansible-srpm-macros-1-6.fc37.noarch                144/152 
  Installing       : fonts-srpm-macros-1:2.0.5-8.fc37.noarch            145/152 
  Installing       : go-srpm-macros-3.1.0-4.fc37.noarch                 146/152 
  Installing       : python-srpm-macros-3.11-4.fc37.noarch              147/152 
  Installing       : redhat-rpm-config-227-1.fc37.noarch                148/152 
  Installing       : rpm-build-4.18.0-0.beta1.4.fc37.aarch64            149/152 
  Installing       : util-linux-2.38.1-1.fc37.aarch64                   150/152 
  Installing       : which-2.21-35.fc37.aarch64                         151/152 
  Installing       : info-6.8-4.fc37.aarch64                            152/152 
  Running scriptlet: filesystem-3.18-2.fc37.aarch64                     152/152 
  Running scriptlet: ca-certificates-2022.2.54-5.fc37.noarch            152/152 
  Running scriptlet: authselect-libs-1.4.0-3.fc37.aarch64               152/152 
  Running scriptlet: rpm-4.18.0-0.beta1.4.fc37.aarch64                  152/152 
  Running scriptlet: info-6.8-4.fc37.aarch64                            152/152 
  Verifying        : alternatives-1.19-3.fc37.aarch64                     1/152 
  Verifying        : ansible-srpm-macros-1-6.fc37.noarch                  2/152 
  Verifying        : audit-libs-3.0.8-3.fc37.aarch64                      3/152 
  Verifying        : authselect-1.4.0-3.fc37.aarch64                      4/152 
  Verifying        : authselect-libs-1.4.0-3.fc37.aarch64                 5/152 
  Verifying        : basesystem-11-14.fc37.noarch                         6/152 
  Verifying        : bash-5.1.16-3.fc37.aarch64                           7/152 
  Verifying        : binutils-2.38-24.fc38.aarch64                        8/152 
  Verifying        : binutils-gold-2.38-24.fc38.aarch64                   9/152 
  Verifying        : bzip2-1.0.8-12.fc37.aarch64                         10/152 
  Verifying        : bzip2-libs-1.0.8-12.fc37.aarch64                    11/152 
  Verifying        : ca-certificates-2022.2.54-5.fc37.noarch             12/152 
  Verifying        : coreutils-9.1-6.fc37.aarch64                        13/152 
  Verifying        : coreutils-common-9.1-6.fc37.aarch64                 14/152 
  Verifying        : cpio-2.13-13.fc37.aarch64                           15/152 
  Verifying        : cracklib-2.9.6-28.fc36.aarch64                      16/152 
  Verifying        : crypto-policies-20220802-1.gita99dfd2.fc37.noarc    17/152 
  Verifying        : curl-7.84.0-2.fc37.aarch64                          18/152 
  Verifying        : cyrus-sasl-lib-2.1.28-7.fc37.aarch64                19/152 
  Verifying        : debugedit-5.0-5.fc37.aarch64                        20/152 
  Verifying        : diffutils-3.8-3.fc37.aarch64                        21/152 
  Verifying        : dwz-0.14-7.fc37.aarch64                             22/152 
  Verifying        : ed-1.18-2.fc37.aarch64                              23/152 
  Verifying        : efi-srpm-macros-5-6.fc37.noarch                     24/152 
  Verifying        : elfutils-0.187-6.fc37.aarch64                       25/152 
  Verifying        : elfutils-debuginfod-client-0.187-6.fc37.aarch64     26/152 
  Verifying        : elfutils-default-yama-scope-0.187-6.fc37.noarch     27/152 
  Verifying        : elfutils-libelf-0.187-6.fc37.aarch64                28/152 
  Verifying        : elfutils-libs-0.187-6.fc37.aarch64                  29/152 
  Verifying        : fedora-gpg-keys-38-0.2.noarch                       30/152 
  Verifying        : fedora-release-38-0.2.noarch                        31/152 
  Verifying        : fedora-release-common-38-0.2.noarch                 32/152 
  Verifying        : fedora-release-identity-basic-38-0.2.noarch         33/152 
  Verifying        : fedora-repos-38-0.2.noarch                          34/152 
  Verifying        : fedora-repos-rawhide-38-0.2.noarch                  35/152 
  Verifying        : file-5.42-4.fc37.aarch64                            36/152 
  Verifying        : file-libs-5.42-4.fc37.aarch64                       37/152 
  Verifying        : filesystem-3.18-2.fc37.aarch64                      38/152 
  Verifying        : findutils-1:4.9.0-2.fc37.aarch64                    39/152 
  Verifying        : fonts-srpm-macros-1:2.0.5-8.fc37.noarch             40/152 
  Verifying        : fpc-srpm-macros-1.3-6.fc37.noarch                   41/152 
  Verifying        : gawk-5.1.1-4.fc37.aarch64                           42/152 
  Verifying        : gdb-minimal-12.1-4.fc37.aarch64                     43/152 
  Verifying        : gdbm-libs-1:1.23-2.fc37.aarch64                     44/152 
  Verifying        : ghc-srpm-macros-1.5.0-7.fc37.noarch                 45/152 
  Verifying        : glibc-2.36-1.fc37.aarch64                           46/152 
  Verifying        : glibc-common-2.36-1.fc37.aarch64                    47/152 
  Verifying        : glibc-gconv-extra-2.36-1.fc37.aarch64               48/152 
  Verifying        : glibc-minimal-langpack-2.36-1.fc37.aarch64          49/152 
  Verifying        : gmp-1:6.2.1-3.fc37.aarch64                          50/152 
  Verifying        : gnat-srpm-macros-4-16.fc37.noarch                   51/152 
  Verifying        : go-srpm-macros-3.1.0-4.fc37.noarch                  52/152 
  Verifying        : grep-3.7-4.fc37.aarch64                             53/152 
  Verifying        : gzip-1.12-2.fc37.aarch64                            54/152 
  Verifying        : info-6.8-4.fc37.aarch64                             55/152 
  Verifying        : jansson-2.13.1-5.fc37.aarch64                       56/152 
  Verifying        : kernel-srpm-macros-1.0-15.fc37.noarch               57/152 
  Verifying        : keyutils-libs-1.6.1-5.fc37.aarch64                  58/152 
  Verifying        : krb5-libs-1.19.2-11.fc37.1.aarch64                  59/152 
  Verifying        : libacl-2.3.1-4.fc37.aarch64                         60/152 
  Verifying        : libarchive-3.6.1-2.fc37.aarch64                     61/152 
  Verifying        : libattr-2.5.1-5.fc37.aarch64                        62/152 
  Verifying        : libblkid-2.38.1-1.fc37.aarch64                      63/152 
  Verifying        : libbrotli-1.0.9-9.fc37.aarch64                      64/152 
  Verifying        : libcap-2.48-5.fc37.aarch64                          65/152 
  Verifying        : libcap-ng-0.8.3-3.fc37.aarch64                      66/152 
  Verifying        : libcom_err-1.46.5-3.fc37.aarch64                    67/152 
  Verifying        : libcurl-7.84.0-2.fc37.aarch64                       68/152 
  Verifying        : libdb-5.3.28-53.fc37.aarch64                        69/152 
  Verifying        : libeconf-0.4.0-4.fc37.aarch64                       70/152 
  Verifying        : libevent-2.1.12-7.fc37.aarch64                      71/152 
  Verifying        : libfdisk-2.38.1-1.fc37.aarch64                      72/152 
  Verifying        : libffi-3.4.2-9.fc37.aarch64                         73/152 
  Verifying        : libgcc-12.1.1-4.fc38.aarch64                        74/152 
  Verifying        : libgomp-12.1.1-4.fc38.aarch64                       75/152 
  Verifying        : libidn2-2.3.3-2.fc37.aarch64                        76/152 
  Verifying        : libmount-2.38.1-1.fc37.aarch64                      77/152 
  Verifying        : libnghttp2-1.48.0-2.fc37.aarch64                    78/152 
  Verifying        : libnsl2-2.0.0-4.fc37.aarch64                        79/152 
  Verifying        : libpkgconf-1.8.0-3.fc37.aarch64                     80/152 
  Verifying        : libpsl-0.21.1-6.fc37.aarch64                        81/152 
  Verifying        : libpwquality-1.4.4-11.fc37.aarch64                  82/152 
  Verifying        : libselinux-3.4-5.fc37.aarch64                       83/152 
  Verifying        : libsemanage-3.4-5.fc37.aarch64                      84/152 
  Verifying        : libsepol-3.4-3.fc37.aarch64                         85/152 
  Verifying        : libsigsegv-2.14-3.fc37.aarch64                      86/152 
  Verifying        : libsmartcols-2.38.1-1.fc37.aarch64                  87/152 
  Verifying        : libssh-0.9.6-5.fc37.aarch64                         88/152 
  Verifying        : libssh-config-0.9.6-5.fc37.noarch                   89/152 
  Verifying        : libstdc++-12.1.1-4.fc38.aarch64                     90/152 
  Verifying        : libtasn1-4.18.0-3.fc37.aarch64                      91/152 
  Verifying        : libtirpc-1.3.3-0.fc37.aarch64                       92/152 
  Verifying        : libunistring-1.0-2.fc37.aarch64                     93/152 
  Verifying        : libutempter-1.2.1-7.fc37.aarch64                    94/152 
  Verifying        : libuuid-2.38.1-1.fc37.aarch64                       95/152 
  Verifying        : libverto-0.3.2-4.fc37.aarch64                       96/152 
  Verifying        : libxcrypt-4.4.28-3.fc38.aarch64                     97/152 
  Verifying        : libxml2-2.9.14-3.fc37.aarch64                       98/152 
  Verifying        : libzstd-1.5.2-3.fc37.aarch64                        99/152 
  Verifying        : lua-libs-5.4.4-4.fc37.aarch64                      100/152 
  Verifying        : lua-srpm-macros-1-7.fc37.noarch                    101/152 
  Verifying        : lz4-libs-1.9.3-5.fc37.aarch64                      102/152 
  Verifying        : mpfr-4.1.0-10.fc37.aarch64                         103/152 
  Verifying        : ncurses-base-6.3-3.20220501.fc37.noarch            104/152 
  Verifying        : ncurses-libs-6.3-3.20220501.fc37.aarch64           105/152 
  Verifying        : nim-srpm-macros-3-7.fc37.noarch                    106/152 
  Verifying        : ocaml-srpm-macros-7-2.fc37.noarch                  107/152 
  Verifying        : openblas-srpm-macros-2-12.fc37.noarch              108/152 
  Verifying        : openldap-2.6.2-5.fc38.aarch64                      109/152 
  Verifying        : openssl-libs-1:3.0.5-2.fc37.aarch64                110/152 
  Verifying        : p11-kit-0.24.1-3.fc37.aarch64                      111/152 
  Verifying        : p11-kit-trust-0.24.1-3.fc37.aarch64                112/152 
  Verifying        : package-notes-srpm-macros-0.4-16.fc37.noarch       113/152 
  Verifying        : pam-1.5.2-14.fc37.aarch64                          114/152 
  Verifying        : pam-libs-1.5.2-14.fc37.aarch64                     115/152 
  Verifying        : patch-2.7.6-17.fc37.aarch64                        116/152 
  Verifying        : pcre-8.45-1.fc37.2.aarch64                         117/152 
  Verifying        : pcre2-10.40-1.fc37.1.aarch64                       118/152 
  Verifying        : pcre2-syntax-10.40-1.fc37.1.noarch                 119/152 
  Verifying        : perl-srpm-macros-1-46.fc37.noarch                  120/152 
  Verifying        : pkgconf-1.8.0-3.fc37.aarch64                       121/152 
  Verifying        : pkgconf-m4-1.8.0-3.fc37.noarch                     122/152 
  Verifying        : pkgconf-pkg-config-1.8.0-3.fc37.aarch64            123/152 
  Verifying        : popt-1.19~rc1-3.fc37.aarch64                       124/152 
  Verifying        : publicsuffix-list-dafsa-20210518-5.fc37.noarch     125/152 
  Verifying        : python-srpm-macros-3.11-4.fc37.noarch              126/152 
  Verifying        : qt5-srpm-macros-5.15.5-2.fc37.noarch               127/152 
  Verifying        : readline-8.1-7.fc37.aarch64                        128/152 
  Verifying        : redhat-rpm-config-227-1.fc37.noarch                129/152 
  Verifying        : rpm-4.18.0-0.beta1.4.fc37.aarch64                  130/152 
  Verifying        : rpm-build-4.18.0-0.beta1.4.fc37.aarch64            131/152 
  Verifying        : rpm-build-libs-4.18.0-0.beta1.4.fc37.aarch64       132/152 
  Verifying        : rpm-libs-4.18.0-0.beta1.4.fc37.aarch64             133/152 
  Verifying        : rpmautospec-rpm-macros-0.3.0-1.fc37.noarch         134/152 
  Verifying        : rust-srpm-macros-22-1.fc37.noarch                  135/152 
  Verifying        : sed-4.8-11.fc37.aarch64                            136/152 
  Verifying        : setup-2.14.1-2.fc37.noarch                         137/152 
  Verifying        : shadow-utils-2:4.11.1-4.fc37.aarch64               138/152 
  Verifying        : sqlite-libs-3.39.2-2.fc37.aarch64                  139/152 
  Verifying        : systemd-libs-251.4-51.fc37.aarch64                 140/152 
  Verifying        : tar-2:1.34-3.fc36.aarch64                          141/152 
  Verifying        : tzdata-2022b-1.fc38.noarch                         142/152 
  Verifying        : unzip-6.0-58.fc37.aarch64                          143/152 
  Verifying        : util-linux-2.38.1-1.fc37.aarch64                   144/152 
  Verifying        : util-linux-core-2.38.1-1.fc37.aarch64              145/152 
  Verifying        : which-2.21-35.fc37.aarch64                         146/152 
  Verifying        : xxhash-libs-0.8.1-3.fc37.aarch64                   147/152 
  Verifying        : xz-5.2.5-10.fc37.aarch64                           148/152 
  Verifying        : xz-libs-5.2.5-10.fc37.aarch64                      149/152 
  Verifying        : zip-3.0-33.fc37.aarch64                            150/152 
  Verifying        : zlib-1.2.12-4.fc37.aarch64                         151/152 
  Verifying        : zstd-1.5.2-3.fc37.aarch64                          152/152 
Installed products updated.

Installed:
  alternatives-1.19-3.fc37.aarch64                                              
  ansible-srpm-macros-1-6.fc37.noarch                                           
  audit-libs-3.0.8-3.fc37.aarch64                                               
  authselect-1.4.0-3.fc37.aarch64                                               
  authselect-libs-1.4.0-3.fc37.aarch64                                          
  basesystem-11-14.fc37.noarch                                                  
  bash-5.1.16-3.fc37.aarch64                                                    
  binutils-2.38-24.fc38.aarch64                                                 
  binutils-gold-2.38-24.fc38.aarch64                                            
  bzip2-1.0.8-12.fc37.aarch64                                                   
  bzip2-libs-1.0.8-12.fc37.aarch64                                              
  ca-certificates-2022.2.54-5.fc37.noarch                                       
  coreutils-9.1-6.fc37.aarch64                                                  
  coreutils-common-9.1-6.fc37.aarch64                                           
  cpio-2.13-13.fc37.aarch64                                                     
  cracklib-2.9.6-28.fc36.aarch64                                                
  crypto-policies-20220802-1.gita99dfd2.fc37.noarch                             
  curl-7.84.0-2.fc37.aarch64                                                    
  cyrus-sasl-lib-2.1.28-7.fc37.aarch64                                          
  debugedit-5.0-5.fc37.aarch64                                                  
  diffutils-3.8-3.fc37.aarch64                                                  
  dwz-0.14-7.fc37.aarch64                                                       
  ed-1.18-2.fc37.aarch64                                                        
  efi-srpm-macros-5-6.fc37.noarch                                               
  elfutils-0.187-6.fc37.aarch64                                                 
  elfutils-debuginfod-client-0.187-6.fc37.aarch64                               
  elfutils-default-yama-scope-0.187-6.fc37.noarch                               
  elfutils-libelf-0.187-6.fc37.aarch64                                          
  elfutils-libs-0.187-6.fc37.aarch64                                            
  fedora-gpg-keys-38-0.2.noarch                                                 
  fedora-release-38-0.2.noarch                                                  
  fedora-release-common-38-0.2.noarch                                           
  fedora-release-identity-basic-38-0.2.noarch                                   
  fedora-repos-38-0.2.noarch                                                    
  fedora-repos-rawhide-38-0.2.noarch                                            
  file-5.42-4.fc37.aarch64                                                      
  file-libs-5.42-4.fc37.aarch64                                                 
  filesystem-3.18-2.fc37.aarch64                                                
  findutils-1:4.9.0-2.fc37.aarch64                                              
  fonts-srpm-macros-1:2.0.5-8.fc37.noarch                                       
  fpc-srpm-macros-1.3-6.fc37.noarch                                             
  gawk-5.1.1-4.fc37.aarch64                                                     
  gdb-minimal-12.1-4.fc37.aarch64                                               
  gdbm-libs-1:1.23-2.fc37.aarch64                                               
  ghc-srpm-macros-1.5.0-7.fc37.noarch                                           
  glibc-2.36-1.fc37.aarch64                                                     
  glibc-common-2.36-1.fc37.aarch64                                              
  glibc-gconv-extra-2.36-1.fc37.aarch64                                         
  glibc-minimal-langpack-2.36-1.fc37.aarch64                                    
  gmp-1:6.2.1-3.fc37.aarch64                                                    
  gnat-srpm-macros-4-16.fc37.noarch                                             
  go-srpm-macros-3.1.0-4.fc37.noarch                                            
  grep-3.7-4.fc37.aarch64                                                       
  gzip-1.12-2.fc37.aarch64                                                      
  info-6.8-4.fc37.aarch64                                                       
  jansson-2.13.1-5.fc37.aarch64                                                 
  kernel-srpm-macros-1.0-15.fc37.noarch                                         
  keyutils-libs-1.6.1-5.fc37.aarch64                                            
  krb5-libs-1.19.2-11.fc37.1.aarch64                                            
  libacl-2.3.1-4.fc37.aarch64                                                   
  libarchive-3.6.1-2.fc37.aarch64                                               
  libattr-2.5.1-5.fc37.aarch64                                                  
  libblkid-2.38.1-1.fc37.aarch64                                                
  libbrotli-1.0.9-9.fc37.aarch64                                                
  libcap-2.48-5.fc37.aarch64                                                    
  libcap-ng-0.8.3-3.fc37.aarch64                                                
  libcom_err-1.46.5-3.fc37.aarch64                                              
  libcurl-7.84.0-2.fc37.aarch64                                                 
  libdb-5.3.28-53.fc37.aarch64                                                  
  libeconf-0.4.0-4.fc37.aarch64                                                 
  libevent-2.1.12-7.fc37.aarch64                                                
  libfdisk-2.38.1-1.fc37.aarch64                                                
  libffi-3.4.2-9.fc37.aarch64                                                   
  libgcc-12.1.1-4.fc38.aarch64                                                  
  libgomp-12.1.1-4.fc38.aarch64                                                 
  libidn2-2.3.3-2.fc37.aarch64                                                  
  libmount-2.38.1-1.fc37.aarch64                                                
  libnghttp2-1.48.0-2.fc37.aarch64                                              
  libnsl2-2.0.0-4.fc37.aarch64                                                  
  libpkgconf-1.8.0-3.fc37.aarch64                                               
  libpsl-0.21.1-6.fc37.aarch64                                                  
  libpwquality-1.4.4-11.fc37.aarch64                                            
  libselinux-3.4-5.fc37.aarch64                                                 
  libsemanage-3.4-5.fc37.aarch64                                                
  libsepol-3.4-3.fc37.aarch64                                                   
  libsigsegv-2.14-3.fc37.aarch64                                                
  libsmartcols-2.38.1-1.fc37.aarch64                                            
  libssh-0.9.6-5.fc37.aarch64                                                   
  libssh-config-0.9.6-5.fc37.noarch                                             
  libstdc++-12.1.1-4.fc38.aarch64                                               
  libtasn1-4.18.0-3.fc37.aarch64                                                
  libtirpc-1.3.3-0.fc37.aarch64                                                 
  libunistring-1.0-2.fc37.aarch64                                               
  libutempter-1.2.1-7.fc37.aarch64                                              
  libuuid-2.38.1-1.fc37.aarch64                                                 
  libverto-0.3.2-4.fc37.aarch64                                                 
  libxcrypt-4.4.28-3.fc38.aarch64                                               
  libxml2-2.9.14-3.fc37.aarch64                                                 
  libzstd-1.5.2-3.fc37.aarch64                                                  
  lua-libs-5.4.4-4.fc37.aarch64                                                 
  lua-srpm-macros-1-7.fc37.noarch                                               
  lz4-libs-1.9.3-5.fc37.aarch64                                                 
  mpfr-4.1.0-10.fc37.aarch64                                                    
  ncurses-base-6.3-3.20220501.fc37.noarch                                       
  ncurses-libs-6.3-3.20220501.fc37.aarch64                                      
  nim-srpm-macros-3-7.fc37.noarch                                               
  ocaml-srpm-macros-7-2.fc37.noarch                                             
  openblas-srpm-macros-2-12.fc37.noarch                                         
  openldap-2.6.2-5.fc38.aarch64                                                 
  openssl-libs-1:3.0.5-2.fc37.aarch64                                           
  p11-kit-0.24.1-3.fc37.aarch64                                                 
  p11-kit-trust-0.24.1-3.fc37.aarch64                                           
  package-notes-srpm-macros-0.4-16.fc37.noarch                                  
  pam-1.5.2-14.fc37.aarch64                                                     
  pam-libs-1.5.2-14.fc37.aarch64                                                
  patch-2.7.6-17.fc37.aarch64                                                   
  pcre-8.45-1.fc37.2.aarch64                                                    
  pcre2-10.40-1.fc37.1.aarch64                                                  
  pcre2-syntax-10.40-1.fc37.1.noarch                                            
  perl-srpm-macros-1-46.fc37.noarch                                             
  pkgconf-1.8.0-3.fc37.aarch64                                                  
  pkgconf-m4-1.8.0-3.fc37.noarch                                                
  pkgconf-pkg-config-1.8.0-3.fc37.aarch64                                       
  popt-1.19~rc1-3.fc37.aarch64                                                  
  publicsuffix-list-dafsa-20210518-5.fc37.noarch                                
  python-srpm-macros-3.11-4.fc37.noarch                                         
  qt5-srpm-macros-5.15.5-2.fc37.noarch                                          
  readline-8.1-7.fc37.aarch64                                                   
  redhat-rpm-config-227-1.fc37.noarch                                           
  rpm-4.18.0-0.beta1.4.fc37.aarch64                                             
  rpm-build-4.18.0-0.beta1.4.fc37.aarch64                                       
  rpm-build-libs-4.18.0-0.beta1.4.fc37.aarch64                                  
  rpm-libs-4.18.0-0.beta1.4.fc37.aarch64                                        
  rpmautospec-rpm-macros-0.3.0-1.fc37.noarch                                    
  rust-srpm-macros-22-1.fc37.noarch                                             
  sed-4.8-11.fc37.aarch64                                                       
  setup-2.14.1-2.fc37.noarch                                                    
  shadow-utils-2:4.11.1-4.fc37.aarch64                                          
  sqlite-libs-3.39.2-2.fc37.aarch64                                             
  systemd-libs-251.4-51.fc37.aarch64                                            
  tar-2:1.34-3.fc36.aarch64                                                     
  tzdata-2022b-1.fc38.noarch                                                    
  unzip-6.0-58.fc37.aarch64                                                     
  util-linux-2.38.1-1.fc37.aarch64                                              
  util-linux-core-2.38.1-1.fc37.aarch64                                         
  which-2.21-35.fc37.aarch64                                                    
  xxhash-libs-0.8.1-3.fc37.aarch64                                              
  xz-5.2.5-10.fc37.aarch64                                                      
  xz-libs-5.2.5-10.fc37.aarch64                                                 
  zip-3.0-33.fc37.aarch64                                                       
  zlib-1.2.12-4.fc37.aarch64                                                    
  zstd-1.5.2-3.fc37.aarch64                                                     

Complete!
Finish: dnf install
Start: creating root cache
Finish: creating root cache
Finish: chroot init
INFO: Installed packages:
INFO: qt5-srpm-macros-5.15.5-2.fc37.noarch
perl-srpm-macros-1-46.fc37.noarch
pcre2-syntax-10.40-1.fc37.1.noarch
elfutils-debuginfod-client-0.187-6.fc37.aarch64
go-srpm-macros-3.1.0-4.fc37.noarch
publicsuffix-list-dafsa-20210518-5.fc37.noarch
fedora-gpg-keys-38-0.2.noarch
pkgconf-pkg-config-1.8.0-3.fc37.aarch64
libmount-2.38.1-1.fc37.aarch64
util-linux-2.38.1-1.fc37.aarch64
sqlite-libs-3.39.2-2.fc37.aarch64
libxcrypt-4.4.28-3.fc38.aarch64
glibc-minimal-langpack-2.36-1.fc37.aarch64
crypto-policies-20220802-1.gita99dfd2.fc37.noarch
kernel-srpm-macros-1.0-15.fc37.noarch
gzip-1.12-2.fc37.aarch64
elfutils-default-yama-scope-0.187-6.fc37.noarch
pam-1.5.2-14.fc37.aarch64
libnsl2-2.0.0-4.fc37.aarch64
dwz-0.14-7.fc37.aarch64
authselect-libs-1.4.0-3.fc37.aarch64
libblkid-2.38.1-1.fc37.aarch64
info-6.8-4.fc37.aarch64
rpm-build-libs-4.18.0-0.beta1.4.fc37.aarch64
bzip2-1.0.8-12.fc37.aarch64
file-5.42-4.fc37.aarch64
rpm-4.18.0-0.beta1.4.fc37.aarch64
gmp-6.2.1-3.fc37.aarch64
keyutils-libs-1.6.1-5.fc37.aarch64
elfutils-0.187-6.fc37.aarch64
gpg-pubkey-5323552a-6112bcdc
xz-5.2.5-10.fc37.aarch64
which-2.21-35.fc37.aarch64
fedora-repos-38-0.2.noarch
coreutils-common-9.1-6.fc37.aarch64
libutempter-1.2.1-7.fc37.aarch64
python-srpm-macros-3.11-4.fc37.noarch
tar-1.34-3.fc36.aarch64
libpkgconf-1.8.0-3.fc37.aarch64
libstdc++-12.1.1-4.fc38.aarch64
libunistring-1.0-2.fc37.aarch64
cracklib-2.9.6-28.fc36.aarch64
libtirpc-1.3.3-0.fc37.aarch64
libattr-2.5.1-5.fc37.aarch64
libeconf-0.4.0-4.fc37.aarch64
pam-libs-1.5.2-14.fc37.aarch64
libxml2-2.9.14-3.fc37.aarch64
pkgconf-1.8.0-3.fc37.aarch64
elfutils-libs-0.187-6.fc37.aarch64
libbrotli-1.0.9-9.fc37.aarch64
libsepol-3.4-3.fc37.aarch64
fedora-repos-rawhide-38-0.2.noarch
libnghttp2-1.48.0-2.fc37.aarch64
libssh-config-0.9.6-5.fc37.noarch
libevent-2.1.12-7.fc37.aarch64
basesystem-11-14.fc37.noarch
fpc-srpm-macros-1.3-6.fc37.noarch
gawk-5.1.1-4.fc37.aarch64
zip-3.0-33.fc37.aarch64
fedora-release-identity-basic-38-0.2.noarch
curl-7.84.0-2.fc37.aarch64
findutils-4.9.0-2.fc37.aarch64
gdb-minimal-12.1-4.fc37.aarch64
alternatives-1.19-3.fc37.aarch64
glibc-gconv-extra-2.36-1.fc37.aarch64
bash-5.1.16-3.fc37.aarch64
libzstd-1.5.2-3.fc37.aarch64
pcre-8.45-1.fc37.2.aarch64
libacl-2.3.1-4.fc37.aarch64
libarchive-3.6.1-2.fc37.aarch64
rpmautospec-rpm-macros-0.3.0-1.fc37.noarch
xz-libs-5.2.5-10.fc37.aarch64
libssh-0.9.6-5.fc37.aarch64
diffutils-3.8-3.fc37.aarch64
xxhash-libs-0.8.1-3.fc37.aarch64
fedora-release-common-38-0.2.noarch
libuuid-2.38.1-1.fc37.aarch64
libverto-0.3.2-4.fc37.aarch64
efi-srpm-macros-5-6.fc37.noarch
openblas-srpm-macros-2-12.fc37.noarch
fedora-release-38-0.2.noarch
libidn2-2.3.3-2.fc37.aarch64
package-notes-srpm-macros-0.4-16.fc37.noarch
patch-2.7.6-17.fc37.aarch64
rpm-libs-4.18.0-0.beta1.4.fc37.aarch64
libffi-3.4.2-9.fc37.aarch64
p11-kit-trust-0.24.1-3.fc37.aarch64
krb5-libs-1.19.2-11.fc37.1.aarch64
nim-srpm-macros-3-7.fc37.noarch
lz4-libs-1.9.3-5.fc37.aarch64
libselinux-3.4-5.fc37.aarch64
debugedit-5.0-5.fc37.aarch64
ncurses-base-6.3-3.20220501.fc37.noarch
elfutils-libelf-0.187-6.fc37.aarch64
grep-3.7-4.fc37.aarch64
gpg-pubkey-eb10b464-6202d9c6
authselect-1.4.0-3.fc37.aarch64
libpsl-0.21.1-6.fc37.aarch64
ncurses-libs-6.3-3.20220501.fc37.aarch64
lua-libs-5.4.4-4.fc37.aarch64
pcre2-10.40-1.fc37.1.aarch64
tzdata-2022b-1.fc38.noarch
openssl-libs-3.0.5-2.fc37.aarch64
p11-kit-0.24.1-3.fc37.aarch64
jansson-2.13.1-5.fc37.aarch64
pkgconf-m4-1.8.0-3.fc37.noarch
libgomp-12.1.1-4.fc38.aarch64
util-linux-core-2.38.1-1.fc37.aarch64
libfdisk-2.38.1-1.fc37.aarch64
systemd-libs-251.4-51.fc37.aarch64
libcom_err-1.46.5-3.fc37.aarch64
libsmartcols-2.38.1-1.fc37.aarch64
zstd-1.5.2-3.fc37.aarch64
ca-certificates-2022.2.54-5.fc37.noarch
gdbm-libs-1.23-2.fc37.aarch64
libsemanage-3.4-5.fc37.aarch64
glibc-common-2.36-1.fc37.aarch64
fonts-srpm-macros-2.0.5-8.fc37.noarch
libdb-5.3.28-53.fc37.aarch64
libcap-2.48-5.fc37.aarch64
libgcc-12.1.1-4.fc38.aarch64
unzip-6.0-58.fc37.aarch64
bzip2-libs-1.0.8-12.fc37.aarch64
shadow-utils-4.11.1-4.fc37.aarch64
binutils-2.38-24.fc38.aarch64
glibc-2.36-1.fc37.aarch64
ghc-srpm-macros-1.5.0-7.fc37.noarch
libpwquality-1.4.4-11.fc37.aarch64
rpm-build-4.18.0-0.beta1.4.fc37.aarch64
libcurl-7.84.0-2.fc37.aarch64
binutils-gold-2.38-24.fc38.aarch64
popt-1.19~rc1-3.fc37.aarch64
readline-8.1-7.fc37.aarch64
openldap-2.6.2-5.fc38.aarch64
cyrus-sasl-lib-2.1.28-7.fc37.aarch64
zlib-1.2.12-4.fc37.aarch64
cpio-2.13-13.fc37.aarch64
ed-1.18-2.fc37.aarch64
libsigsegv-2.14-3.fc37.aarch64
gnat-srpm-macros-4-16.fc37.noarch
libtasn1-4.18.0-3.fc37.aarch64
rust-srpm-macros-22-1.fc37.noarch
ocaml-srpm-macros-7-2.fc37.noarch
file-libs-5.42-4.fc37.aarch64
libcap-ng-0.8.3-3.fc37.aarch64
mpfr-4.1.0-10.fc37.aarch64
filesystem-3.18-2.fc37.aarch64
setup-2.14.1-2.fc37.noarch
coreutils-9.1-6.fc37.aarch64
lua-srpm-macros-1-7.fc37.noarch
redhat-rpm-config-227-1.fc37.noarch
sed-4.8-11.fc37.aarch64
ansible-srpm-macros-1-6.fc37.noarch
audit-libs-3.0.8-3.fc37.aarch64
Start: buildsrpm
Start: rpmbuild -bs
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1660521600
Wrote: /builddir/build/SRPMS/bcftools-1.15.1-1.fc38.src.rpm
Finish: rpmbuild -bs
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-aarch64-1660580509.310641/root/var/log/dnf.rpm.log
/var/lib/mock/fedora-rawhide-aarch64-1660580509.310641/root/var/log/dnf.librepo.log
/var/lib/mock/fedora-rawhide-aarch64-1660580509.310641/root/var/log/dnf.log
Finish: buildsrpm
INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-6otq62h8/bcftools/bcftools.spec) Config(child) 1 minutes 13 seconds
INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results
INFO: Cleaning up build root ('cleanup_on_success=True')
Start: clean chroot
INFO: unmounting tmpfs.
Finish: clean chroot
Finish: run
Running (timeout=18000): unbuffer mock --rebuild /var/lib/copr-rpmbuild/results/bcftools-1.15.1-1.fc38.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1660580509.310641 -r /var/lib/copr-rpmbuild/results/configs/child.cfg
INFO: mock.py version 3.1 starting (python version = 3.10.4, NVR = mock-3.1-1.fc35)...
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/results/bcftools-1.15.1-1.fc38.src.rpm)  Config(fedora-rawhide-aarch64)
Start: clean chroot
Finish: clean chroot
Start: chroot init
INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1660580509.310641/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
Mock Version: 3.1
INFO: Mock Version: 3.1
Start: dnf update
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

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

Copr repository                                  30 kB/s | 3.3 kB     00:00    
fedora                                          194 kB/s |  13 kB     00:00    
Dependencies resolved.
Nothing to do.
Complete!
Finish: dnf update
Finish: chroot init
Start: build phase for bcftools-1.15.1-1.fc38.src.rpm
Start: build setup for bcftools-1.15.1-1.fc38.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1660521600
Wrote: /builddir/build/SRPMS/bcftools-1.15.1-1.fc38.src.rpm
No matches found for the following disable plugin patterns: local, spacewalk, versionlock
Updating Subscription Management repositories.
Unable to read consumer identity

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

Copr repository                                  95 kB/s | 3.3 kB     00:00    
fedora                                          182 kB/s |  13 kB     00:00    
Dependencies resolved.
================================================================================
 Package                 Arch    Version                        Repo       Size
================================================================================
Installing:
 gcc                     aarch64 12.1.1-4.fc38                  fedora     29 M
 gsl-devel               aarch64 2.6-7.fc37                     fedora    634 k
 htslib-devel            aarch64 1.15.1-1.fc38                  copr_base 100 k
 htslib-tools            aarch64 1.15.1-1.fc38                  copr_base 533 k
 make                    aarch64 1:4.3-11.fc37                  fedora    537 k
 perl-ExtUtils-Embed     noarch  1.35-491.fc37                  fedora     22 k
 perl-File-Temp          noarch  1:0.231.100-489.fc37           fedora     59 k
 perl-FindBin            noarch  1.53-491.fc37                  fedora     18 k
 perl-Getopt-Long        noarch  1:2.52-489.fc37                fedora     60 k
 perl-interpreter        aarch64 4:5.36.0-491.fc37              fedora     76 k
 zlib-devel              aarch64 1.2.12-4.fc37                  fedora     44 k
Installing dependencies:
 annobin-docs            noarch  10.81-1.fc38                   fedora     91 k
 annobin-plugin-gcc      aarch64 10.81-1.fc38                   fedora    882 k
 autoconf                noarch  2.71-3.fc37                    fedora    733 k
 automake                noarch  1.16.5-9.fc37                  fedora    696 k
 cpp                     aarch64 12.1.1-4.fc38                  fedora    9.2 M
 emacs-filesystem        noarch  1:28.1-3.fc37                  fedora    9.5 k
 expat                   aarch64 2.4.8-2.fc37                   fedora    105 k
 gc                      aarch64 8.0.6-4.fc37                   fedora    102 k
 gcc-plugin-annobin      aarch64 12.1.1-4.fc38                  fedora     50 k
 glibc-devel             aarch64 2.36-1.fc37                    fedora    583 k
 groff-base              aarch64 1.22.4-10.fc37                 fedora    1.0 M
 gsl                     aarch64 2.6-7.fc37                     fedora    1.0 M
 guile22                 aarch64 2.2.7-6.fc37                   fedora    6.5 M
 htslib                  aarch64 1.15.1-1.fc38                  copr_base 478 k
 kernel-headers          aarch64 5.19.0-1.fc37                  fedora    1.5 M
 libasan                 aarch64 12.1.1-4.fc38                  fedora    421 k
 libatomic               aarch64 12.1.1-4.fc38                  fedora     41 k
 libb2                   aarch64 0.98.1-7.fc37                  fedora     24 k
 libmpc                  aarch64 1.2.1-5.fc37                   fedora     62 k
 libtool-ltdl            aarch64 2.4.7-2.fc37                   fedora     37 k
 libubsan                aarch64 12.1.1-4.fc38                  fedora    190 k
 libxcrypt-devel         aarch64 4.4.28-3.fc38                  fedora     28 k
 m4                      aarch64 1.4.19-4.fc37                  fedora    299 k
 mpdecimal               aarch64 2.5.1-4.fc37                   fedora    102 k
 ncurses                 aarch64 6.3-3.20220501.fc37            fedora    409 k
 perl-AutoSplit          noarch  5.74-491.fc37                  fedora     26 k
 perl-B                  aarch64 1.83-491.fc37                  fedora    187 k
 perl-Benchmark          noarch  1.23-491.fc37                  fedora     31 k
 perl-Carp               noarch  1.52-489.fc37                  fedora     29 k
 perl-Class-Struct       noarch  0.66-491.fc37                  fedora     26 k
 perl-Data-Dumper        aarch64 2.184-490.fc37                 fedora     55 k
 perl-Devel-PPPort       aarch64 3.68-490.fc37                  fedora    216 k
 perl-DynaLoader         aarch64 1.52-491.fc37                  fedora     30 k
 perl-Encode             aarch64 4:3.19-491.fc37                fedora    1.7 M
 perl-Errno              aarch64 1.36-491.fc37                  fedora     19 k
 perl-Exporter           noarch  5.77-489.fc37                  fedora     31 k
 perl-ExtUtils-Command   noarch  2:7.64-490.fc37                fedora     14 k
 perl-ExtUtils-Constant  noarch  0.25-491.fc37                  fedora     51 k
 perl-ExtUtils-Install   noarch  2.20-489.fc37                  fedora     44 k
 perl-ExtUtils-MakeMaker noarch  2:7.64-490.fc37                fedora    301 k
 perl-ExtUtils-Manifest  noarch  1:1.73-489.fc37                fedora     34 k
 perl-ExtUtils-ParseXS   noarch  1:3.45-489.fc37                fedora    188 k
 perl-Fcntl              aarch64 1.15-491.fc37                  fedora     25 k
 perl-File-Basename      noarch  2.85-491.fc37                  fedora     22 k
 perl-File-Compare       noarch  1.100.700-491.fc37             fedora     18 k
 perl-File-Copy          noarch  2.39-491.fc37                  fedora     24 k
 perl-File-Find          noarch  1.40-491.fc37                  fedora     30 k
 perl-File-Path          noarch  2.18-489.fc37                  fedora     35 k
 perl-File-stat          noarch  1.12-491.fc37                  fedora     22 k
 perl-Getopt-Std         noarch  1.13-491.fc37                  fedora     20 k
 perl-HTTP-Tiny          noarch  0.082-1.fc37                   fedora     55 k
 perl-IO                 aarch64 1.50-491.fc37                  fedora     96 k
 perl-IPC-Open3          noarch  1.22-491.fc37                  fedora     27 k
 perl-MIME-Base64        aarch64 3.16-489.fc37                  fedora     30 k
 perl-POSIX              aarch64 2.03-491.fc37                  fedora    102 k
 perl-PathTools          aarch64 3.84-489.fc37                  fedora     90 k
 perl-Pod-Escapes        noarch  1:1.07-489.fc37                fedora     20 k
 perl-Pod-Perldoc        noarch  3.28.01-490.fc37               fedora     90 k
 perl-Pod-Simple         noarch  1:3.43-490.fc37                fedora    225 k
 perl-Pod-Usage          noarch  4:2.03-3.fc37                  fedora     40 k
 perl-Scalar-List-Utils  aarch64 5:1.63-489.fc38                fedora     71 k
 perl-SelectSaver        noarch  1.02-491.fc37                  fedora     16 k
 perl-Socket             aarch64 4:2.035-2.fc37                 fedora     55 k
 perl-Storable           aarch64 1:3.26-489.fc37                fedora     95 k
 perl-Symbol             noarch  1.09-491.fc37                  fedora     19 k
 perl-Term-ANSIColor     noarch  5.01-490.fc37                  fedora     48 k
 perl-Term-Cap           noarch  1.17-489.fc37                  fedora     22 k
 perl-Test-Harness       noarch  1:3.44-490.fc37                fedora    288 k
 perl-Text-ParseWords    noarch  3.31-489.fc37                  fedora     16 k
 perl-Text-Tabs+Wrap     noarch  2021.0814-489.fc37             fedora     22 k
 perl-Thread-Queue       noarch  3.14-489.fc37                  fedora     21 k
 perl-Time-Local         noarch  2:1.300-489.fc37               fedora     33 k
 perl-base               noarch  2.27-491.fc37                  fedora     21 k
 perl-constant           noarch  1.33-490.fc37                  fedora     23 k
 perl-devel              aarch64 4:5.36.0-491.fc37              fedora    716 k
 perl-if                 noarch  0.61.000-491.fc37              fedora     18 k
 perl-lib                aarch64 0.65-491.fc37                  fedora     19 k
 perl-libs               aarch64 4:5.36.0-491.fc37              fedora    2.2 M
 perl-locale             noarch  1.10-491.fc37                  fedora     18 k
 perl-mro                aarch64 1.26-491.fc37                  fedora     33 k
 perl-overload           noarch  1.35-491.fc37                  fedora     50 k
 perl-overloading        noarch  0.02-491.fc37                  fedora     17 k
 perl-parent             noarch  1:0.238-489.fc37               fedora     14 k
 perl-podlators          noarch  1:4.14-489.fc37                fedora    116 k
 perl-subs               noarch  1.04-491.fc37                  fedora     16 k
 perl-threads            aarch64 1:2.27-489.fc37                fedora     56 k
 perl-threads-shared     aarch64 1.64-489.fc37                  fedora     43 k
 perl-vars               noarch  1.05-491.fc37                  fedora     17 k
 perl-version            aarch64 8:0.99.29-490.fc37             fedora     62 k
 python-pip-wheel        noarch  22.2-1.fc37                    fedora    1.4 M
 python-setuptools-wheel noarch  62.6.0-2.fc37                  fedora    712 k
 python3                 aarch64 3.11.0~rc1-1.fc38              fedora     27 k
 python3-libs            aarch64 3.11.0~rc1-1.fc38              fedora    9.5 M
 python3-pyparsing       noarch  3.0.9-2.fc37                   fedora    262 k
 systemtap-sdt-devel     aarch64 4.8~pre16594741g5bdc37b9-1.fc37
                                                                fedora     73 k

Transaction Summary
================================================================================
Install  106 Packages

Total download size: 75 M
Installed size: 263 M
Downloading Packages:
(1/106): htslib-devel-1.15.1-1.fc38.aarch64.rpm 2.1 MB/s | 100 kB     00:00    
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(6/106): autoconf-2.71-3.fc37.noarch.rpm         27 MB/s | 733 kB     00:00    
(7/106): emacs-filesystem-28.1-3.fc37.noarch.rp 1.6 MB/s | 9.5 kB     00:00    
(8/106): expat-2.4.8-2.fc37.aarch64.rpm          23 MB/s | 105 kB     00:00    
(9/106): automake-1.16.5-9.fc37.noarch.rpm       21 MB/s | 696 kB     00:00    
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(14/106): gsl-2.6-7.fc37.aarch64.rpm             16 MB/s | 1.0 MB     00:00    
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(16/106): cpp-12.1.1-4.fc38.aarch64.rpm          28 MB/s | 9.2 MB     00:00    
(17/106): kernel-headers-5.19.0-1.fc37.aarch64.  32 MB/s | 1.5 MB     00:00    
(18/106): guile22-2.2.7-6.fc37.aarch64.rpm       42 MB/s | 6.5 MB     00:00    
(19/106): libasan-12.1.1-4.fc38.aarch64.rpm      16 MB/s | 421 kB     00:00    
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(23/106): libtool-ltdl-2.4.7-2.fc37.aarch64.rpm 6.5 MB/s |  37 kB     00:00    
(24/106): libubsan-12.1.1-4.fc38.aarch64.rpm     19 MB/s | 190 kB     00:00    
(25/106): libxcrypt-devel-4.4.28-3.fc38.aarch64 3.3 MB/s |  28 kB     00:00    
(26/106): m4-1.4.19-4.fc37.aarch64.rpm           19 MB/s | 299 kB     00:00    
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(28/106): mpdecimal-2.5.1-4.fc37.aarch64.rpm    6.1 MB/s | 102 kB     00:00    
(29/106): perl-AutoSplit-5.74-491.fc37.noarch.r 2.4 MB/s |  26 kB     00:00    
(30/106): ncurses-6.3-3.20220501.fc37.aarch64.r  24 MB/s | 409 kB     00:00    
(31/106): perl-Benchmark-1.23-491.fc37.noarch.r 3.4 MB/s |  31 kB     00:00    
(32/106): gcc-12.1.1-4.fc38.aarch64.rpm          53 MB/s |  29 MB     00:00    
(33/106): perl-Carp-1.52-489.fc37.noarch.rpm    485 kB/s |  29 kB     00:00    
(34/106): perl-B-1.83-491.fc37.aarch64.rpm      2.3 MB/s | 187 kB     00:00    
(35/106): perl-Class-Struct-0.66-491.fc37.noarc 4.0 MB/s |  26 kB     00:00    
(36/106): perl-Data-Dumper-2.184-490.fc37.aarch 8.6 MB/s |  55 kB     00:00    
(37/106): perl-DynaLoader-1.52-491.fc37.aarch64 5.2 MB/s |  30 kB     00:00    
(38/106): perl-Devel-PPPort-3.68-490.fc37.aarch  14 MB/s | 216 kB     00:00    
(39/106): perl-Errno-1.36-491.fc37.aarch64.rpm  3.2 MB/s |  19 kB     00:00    
(40/106): perl-Exporter-5.77-489.fc37.noarch.rp 6.0 MB/s |  31 kB     00:00    
(41/106): perl-ExtUtils-Command-7.64-490.fc37.n 2.9 MB/s |  14 kB     00:00    
(42/106): perl-ExtUtils-Constant-0.25-491.fc37. 6.1 MB/s |  51 kB     00:00    
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(44/106): perl-ExtUtils-Install-2.20-489.fc37.n 2.6 MB/s |  44 kB     00:00    
(45/106): perl-ExtUtils-MakeMaker-7.64-490.fc37  15 MB/s | 301 kB     00:00    
(46/106): perl-ExtUtils-Manifest-1.73-489.fc37. 2.7 MB/s |  34 kB     00:00    
(47/106): perl-ExtUtils-ParseXS-3.45-489.fc37.n 9.8 MB/s | 188 kB     00:00    
(48/106): perl-Fcntl-1.15-491.fc37.aarch64.rpm  1.5 MB/s |  25 kB     00:00    
(49/106): perl-File-Basename-2.85-491.fc37.noar 2.7 MB/s |  22 kB     00:00    
(50/106): perl-File-Compare-1.100.700-491.fc37. 3.9 MB/s |  18 kB     00:00    
(51/106): perl-File-Copy-2.39-491.fc37.noarch.r 8.8 MB/s |  24 kB     00:00    
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(53/106): perl-File-Find-1.40-491.fc37.noarch.r 2.9 MB/s |  30 kB     00:00    
(54/106): perl-File-stat-1.12-491.fc37.noarch.r 2.8 MB/s |  22 kB     00:00    
(55/106): perl-File-Temp-0.231.100-489.fc37.noa 4.5 MB/s |  59 kB     00:00    
(56/106): perl-Encode-3.19-491.fc37.aarch64.rpm  15 MB/s | 1.7 MB     00:00    
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(58/106): perl-Getopt-Long-2.52-489.fc37.noarch 4.4 MB/s |  60 kB     00:00    
(59/106): perl-Getopt-Std-1.13-491.fc37.noarch. 5.3 MB/s |  20 kB     00:00    
(60/106): perl-IO-1.50-491.fc37.aarch64.rpm     8.4 MB/s |  96 kB     00:00    
(61/106): perl-HTTP-Tiny-0.082-1.fc37.noarch.rp 4.2 MB/s |  55 kB     00:00    
(62/106): perl-IPC-Open3-1.22-491.fc37.noarch.r 2.3 MB/s |  27 kB     00:00    
(63/106): perl-MIME-Base64-3.16-489.fc37.aarch6 6.1 MB/s |  30 kB     00:00    
(64/106): perl-POSIX-2.03-491.fc37.aarch64.rpm   12 MB/s | 102 kB     00:00    
(65/106): perl-PathTools-3.84-489.fc37.aarch64. 8.1 MB/s |  90 kB     00:00    
(66/106): perl-Pod-Escapes-1.07-489.fc37.noarch 1.5 MB/s |  20 kB     00:00    
(67/106): perl-Pod-Perldoc-3.28.01-490.fc37.noa 8.9 MB/s |  90 kB     00:00    
(68/106): perl-Pod-Usage-2.03-3.fc37.noarch.rpm 6.1 MB/s |  40 kB     00:00    
(69/106): perl-Scalar-List-Utils-1.63-489.fc38. 7.0 MB/s |  71 kB     00:00    
(70/106): perl-Pod-Simple-3.43-490.fc37.noarch.  12 MB/s | 225 kB     00:00    
(71/106): perl-SelectSaver-1.02-491.fc37.noarch 2.4 MB/s |  16 kB     00:00    
(72/106): perl-Symbol-1.09-491.fc37.noarch.rpm  1.9 MB/s |  19 kB     00:00    
(73/106): perl-Storable-3.26-489.fc37.aarch64.r 6.9 MB/s |  95 kB     00:00    
(74/106): perl-Socket-2.035-2.fc37.aarch64.rpm  3.3 MB/s |  55 kB     00:00    
(75/106): perl-Term-ANSIColor-5.01-490.fc37.noa 5.6 MB/s |  48 kB     00:00    
(76/106): perl-Term-Cap-1.17-489.fc37.noarch.rp 3.1 MB/s |  22 kB     00:00    
(77/106): perl-Text-ParseWords-3.31-489.fc37.no 3.4 MB/s |  16 kB     00:00    
(78/106): perl-Test-Harness-3.44-490.fc37.noarc  21 MB/s | 288 kB     00:00    
(79/106): perl-Time-Local-1.300-489.fc37.noarch 7.7 MB/s |  33 kB     00:00    
(80/106): perl-Thread-Queue-3.14-489.fc37.noarc 2.6 MB/s |  21 kB     00:00    
(81/106): perl-Text-Tabs+Wrap-2021.0814-489.fc3 1.5 MB/s |  22 kB     00:00    
(82/106): perl-base-2.27-491.fc37.noarch.rpm    4.8 MB/s |  21 kB     00:00    
(83/106): perl-constant-1.33-490.fc37.noarch.rp 5.2 MB/s |  23 kB     00:00    
(84/106): perl-if-0.61.000-491.fc37.noarch.rpm  5.3 MB/s |  18 kB     00:00    
(85/106): perl-interpreter-5.36.0-491.fc37.aarc  14 MB/s |  76 kB     00:00    
(86/106): perl-lib-0.65-491.fc37.aarch64.rpm    2.4 MB/s |  19 kB     00:00    
(87/106): perl-devel-5.36.0-491.fc37.aarch64.rp  27 MB/s | 716 kB     00:00    
(88/106): perl-locale-1.10-491.fc37.noarch.rpm  1.6 MB/s |  18 kB     00:00    
(89/106): perl-mro-1.26-491.fc37.aarch64.rpm    8.3 MB/s |  33 kB     00:00    
(90/106): perl-overload-1.35-491.fc37.noarch.rp 8.9 MB/s |  50 kB     00:00    
(91/106): perl-overloading-0.02-491.fc37.noarch 3.6 MB/s |  17 kB     00:00    
(92/106): perl-parent-0.238-489.fc37.noarch.rpm 4.6 MB/s |  14 kB     00:00    
(93/106): perl-subs-1.04-491.fc37.noarch.rpm    3.9 MB/s |  16 kB     00:00    
(94/106): perl-podlators-4.14-489.fc37.noarch.r  13 MB/s | 116 kB     00:00    
(95/106): perl-threads-2.27-489.fc37.aarch64.rp 7.0 MB/s |  56 kB     00:00    
(96/106): perl-threads-shared-1.64-489.fc37.aar 6.1 MB/s |  43 kB     00:00    
(97/106): perl-vars-1.05-491.fc37.noarch.rpm    4.2 MB/s |  17 kB     00:00    
(98/106): perl-version-0.99.29-490.fc37.aarch64 6.0 MB/s |  62 kB     00:00    
(99/106): perl-libs-5.36.0-491.fc37.aarch64.rpm  33 MB/s | 2.2 MB     00:00    
(100/106): python-pip-wheel-22.2-1.fc37.noarch.  42 MB/s | 1.4 MB     00:00    
(101/106): python-setuptools-wheel-62.6.0-2.fc3  24 MB/s | 712 kB     00:00    
(102/106): python3-3.11.0~rc1-1.fc38.aarch64.rp 1.4 MB/s |  27 kB     00:00    
(103/106): systemtap-sdt-devel-4.8~pre16594741g  13 MB/s |  73 kB     00:00    
(104/106): python3-pyparsing-3.0.9-2.fc37.noarc  20 MB/s | 262 kB     00:00    
(105/106): zlib-devel-1.2.12-4.fc37.aarch64.rpm 8.6 MB/s |  44 kB     00:00    
(106/106): python3-libs-3.11.0~rc1-1.fc38.aarch  36 MB/s | 9.5 MB     00:00    
--------------------------------------------------------------------------------
Total                                            56 MB/s |  75 MB     00:01     
Running transaction check
Transaction check succeeded.
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Transaction test succeeded.
Running transaction
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  Verifying        : systemtap-sdt-devel-4.8~pre16594741g5bdc37b9-1.f   105/106 
  Verifying        : zlib-devel-1.2.12-4.fc37.aarch64                   106/106 
Installed products updated.

Installed:
  annobin-docs-10.81-1.fc38.noarch                                              
  annobin-plugin-gcc-10.81-1.fc38.aarch64                                       
  autoconf-2.71-3.fc37.noarch                                                   
  automake-1.16.5-9.fc37.noarch                                                 
  cpp-12.1.1-4.fc38.aarch64                                                     
  emacs-filesystem-1:28.1-3.fc37.noarch                                         
  expat-2.4.8-2.fc37.aarch64                                                    
  gc-8.0.6-4.fc37.aarch64                                                       
  gcc-12.1.1-4.fc38.aarch64                                                     
  gcc-plugin-annobin-12.1.1-4.fc38.aarch64                                      
  glibc-devel-2.36-1.fc37.aarch64                                               
  groff-base-1.22.4-10.fc37.aarch64                                             
  gsl-2.6-7.fc37.aarch64                                                        
  gsl-devel-2.6-7.fc37.aarch64                                                  
  guile22-2.2.7-6.fc37.aarch64                                                  
  htslib-1.15.1-1.fc38.aarch64                                                  
  htslib-devel-1.15.1-1.fc38.aarch64                                            
  htslib-tools-1.15.1-1.fc38.aarch64                                            
  kernel-headers-5.19.0-1.fc37.aarch64                                          
  libasan-12.1.1-4.fc38.aarch64                                                 
  libatomic-12.1.1-4.fc38.aarch64                                               
  libb2-0.98.1-7.fc37.aarch64                                                   
  libmpc-1.2.1-5.fc37.aarch64                                                   
  libtool-ltdl-2.4.7-2.fc37.aarch64                                             
  libubsan-12.1.1-4.fc38.aarch64                                                
  libxcrypt-devel-4.4.28-3.fc38.aarch64                                         
  m4-1.4.19-4.fc37.aarch64                                                      
  make-1:4.3-11.fc37.aarch64                                                    
  mpdecimal-2.5.1-4.fc37.aarch64                                                
  ncurses-6.3-3.20220501.fc37.aarch64                                           
  perl-AutoSplit-5.74-491.fc37.noarch                                           
  perl-B-1.83-491.fc37.aarch64                                                  
  perl-Benchmark-1.23-491.fc37.noarch                                           
  perl-Carp-1.52-489.fc37.noarch                                                
  perl-Class-Struct-0.66-491.fc37.noarch                                        
  perl-Data-Dumper-2.184-490.fc37.aarch64                                       
  perl-Devel-PPPort-3.68-490.fc37.aarch64                                       
  perl-DynaLoader-1.52-491.fc37.aarch64                                         
  perl-Encode-4:3.19-491.fc37.aarch64                                           
  perl-Errno-1.36-491.fc37.aarch64                                              
  perl-Exporter-5.77-489.fc37.noarch                                            
  perl-ExtUtils-Command-2:7.64-490.fc37.noarch                                  
  perl-ExtUtils-Constant-0.25-491.fc37.noarch                                   
  perl-ExtUtils-Embed-1.35-491.fc37.noarch                                      
  perl-ExtUtils-Install-2.20-489.fc37.noarch                                    
  perl-ExtUtils-MakeMaker-2:7.64-490.fc37.noarch                                
  perl-ExtUtils-Manifest-1:1.73-489.fc37.noarch                                 
  perl-ExtUtils-ParseXS-1:3.45-489.fc37.noarch                                  
  perl-Fcntl-1.15-491.fc37.aarch64                                              
  perl-File-Basename-2.85-491.fc37.noarch                                       
  perl-File-Compare-1.100.700-491.fc37.noarch                                   
  perl-File-Copy-2.39-491.fc37.noarch                                           
  perl-File-Find-1.40-491.fc37.noarch                                           
  perl-File-Path-2.18-489.fc37.noarch                                           
  perl-File-Temp-1:0.231.100-489.fc37.noarch                                    
  perl-File-stat-1.12-491.fc37.noarch                                           
  perl-FindBin-1.53-491.fc37.noarch                                             
  perl-Getopt-Long-1:2.52-489.fc37.noarch                                       
  perl-Getopt-Std-1.13-491.fc37.noarch                                          
  perl-HTTP-Tiny-0.082-1.fc37.noarch                                            
  perl-IO-1.50-491.fc37.aarch64                                                 
  perl-IPC-Open3-1.22-491.fc37.noarch                                           
  perl-MIME-Base64-3.16-489.fc37.aarch64                                        
  perl-POSIX-2.03-491.fc37.aarch64                                              
  perl-PathTools-3.84-489.fc37.aarch64                                          
  perl-Pod-Escapes-1:1.07-489.fc37.noarch                                       
  perl-Pod-Perldoc-3.28.01-490.fc37.noarch                                      
  perl-Pod-Simple-1:3.43-490.fc37.noarch                                        
  perl-Pod-Usage-4:2.03-3.fc37.noarch                                           
  perl-Scalar-List-Utils-5:1.63-489.fc38.aarch64                                
  perl-SelectSaver-1.02-491.fc37.noarch                                         
  perl-Socket-4:2.035-2.fc37.aarch64                                            
  perl-Storable-1:3.26-489.fc37.aarch64                                         
  perl-Symbol-1.09-491.fc37.noarch                                              
  perl-Term-ANSIColor-5.01-490.fc37.noarch                                      
  perl-Term-Cap-1.17-489.fc37.noarch                                            
  perl-Test-Harness-1:3.44-490.fc37.noarch                                      
  perl-Text-ParseWords-3.31-489.fc37.noarch                                     
  perl-Text-Tabs+Wrap-2021.0814-489.fc37.noarch                                 
  perl-Thread-Queue-3.14-489.fc37.noarch                                        
  perl-Time-Local-2:1.300-489.fc37.noarch                                       
  perl-base-2.27-491.fc37.noarch                                                
  perl-constant-1.33-490.fc37.noarch                                            
  perl-devel-4:5.36.0-491.fc37.aarch64                                          
  perl-if-0.61.000-491.fc37.noarch                                              
  perl-interpreter-4:5.36.0-491.fc37.aarch64                                    
  perl-lib-0.65-491.fc37.aarch64                                                
  perl-libs-4:5.36.0-491.fc37.aarch64                                           
  perl-locale-1.10-491.fc37.noarch                                              
  perl-mro-1.26-491.fc37.aarch64                                                
  perl-overload-1.35-491.fc37.noarch                                            
  perl-overloading-0.02-491.fc37.noarch                                         
  perl-parent-1:0.238-489.fc37.noarch                                           
  perl-podlators-1:4.14-489.fc37.noarch                                         
  perl-subs-1.04-491.fc37.noarch                                                
  perl-threads-1:2.27-489.fc37.aarch64                                          
  perl-threads-shared-1.64-489.fc37.aarch64                                     
  perl-vars-1.05-491.fc37.noarch                                                
  perl-version-8:0.99.29-490.fc37.aarch64                                       
  python-pip-wheel-22.2-1.fc37.noarch                                           
  python-setuptools-wheel-62.6.0-2.fc37.noarch                                  
  python3-3.11.0~rc1-1.fc38.aarch64                                             
  python3-libs-3.11.0~rc1-1.fc38.aarch64                                        
  python3-pyparsing-3.0.9-2.fc37.noarch                                         
  systemtap-sdt-devel-4.8~pre16594741g5bdc37b9-1.fc37.aarch64                   
  zlib-devel-1.2.12-4.fc37.aarch64                                              

Complete!
Finish: build setup for bcftools-1.15.1-1.fc38.src.rpm
Start: rpmbuild bcftools-1.15.1-1.fc38.src.rpm
Building target platforms: aarch64
Building for target aarch64
setting SOURCE_DATE_EPOCH=1660521600
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.5Kp96I
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf bcftools-1.15.1
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/bcftools-1.15.1.tar.bz2
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd bcftools-1.15.1
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ echo 'Patch #0 (bcftools-1.15.1-aarch64-fix-vcf_plugin-tests.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -f -p1 --fuzz=0
Patch #0 (bcftools-1.15.1-aarch64-fix-vcf_plugin-tests.patch):
patching file plugins/fill-tags.c
+ 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.G3gls5
+ umask 022
+ cd /builddir/build/BUILD
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FCFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld'
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ '[' -f /usr/lib/rpm/generate-rpm-note.sh ']'
+ /usr/lib/rpm/generate-rpm-note.sh bcftools 1.15.1-1.fc38 aarch64
+ cd bcftools-1.15.1
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FCFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld'
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']'
++ find . -type f -name configure -print
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./htslib-1.15.1/configure
+ diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure
+ mv ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./htslib-1.15.1/configure
+ diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure
+ mv ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./htslib-1.15.1/configure
+ diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure
--- ./htslib-1.15.1/configure.backup	2022-04-07 15:42:52.000000000 +0000
+++ ./htslib-1.15.1/configure	2022-08-15 16:23:31.450928273 +0000
@@ -1697,7 +1697,7 @@
 #ifdef __cplusplus
 extern "C"
 #endif
-char $2 ();
+__attribute__ ((used)) char $2 ();
 /* The GNU C library defines this for functions which it implements
     to always fail with ENOSYS.  Some functions are actually named
     something starting with __ and the normal name is an alias.  */
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./htslib-1.15.1/configure
+ diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure
+ mv ./htslib-1.15.1/configure.backup ./htslib-1.15.1/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-1.15.1/configure
+ diff -u ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure
+ mv ./htslib-1.15.1/configure.backup ./htslib-1.15.1/configure
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ '[' 1 = 1 ']'
+++ dirname ./configure
++ find . -name config.guess -o -name config.sub
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']'
++ find . -name ltmain.sh
+ ./configure --build=aarch64-redhat-linux-gnu --host=aarch64-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld' --prefix=/usr --with-htslib=system --enable-perl-filters --enable-libgsl '--with-bcf-plugin-path=/usr/local/libexec/bcftools:$(plugindir)'
checking for aarch64-redhat-linux-gnu-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for C compiler warning flags... -Wall
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking for htslib/sam.h... yes
checking for hts_version in -lhts... yes
checking shared library type... plain .so
checking for library containing dlopen... none required
checking if the compiler accepts -rdynamic... yes
checking for zlib.h... yes
checking for inflate in -lz... yes
checking for gsl/gsl_version.h... yes
checking for library containing cblas_dgemm... -lgslcblas
checking for gsl_multifit_gradient in -lgsl... yes
checking for library containing Perl_call_pv... -lperl
checking for library containing regcomp... none required
configure: creating ./config.status
config.status: creating config.mk
config.status: creating config.h
configure: License has been changed to GPL.

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

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

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

+ /usr/bin/make -O -j4 V=1 VERBOSE=1
echo '#define BCFTOOLS_VERSION "1.15.1"' > version.h
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o tabix.o tabix.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfindex.o vcfindex.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfisec.o vcfisec.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfquery.o vcfquery.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcffilter.o vcffilter.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfstats.o vcfstats.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfsom.o vcfsom.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfgtcheck.o vcfgtcheck.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfview.o vcfview.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfmerge.o vcfmerge.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfnorm.o vcfnorm.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfroh.o vcfroh.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fwrapv -fno-strict-aliasing -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64  -I/usr/lib64/perl5/CORE  -c -o filter.o filter.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfconcat.o vcfconcat.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcmp.o vcmp.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o gvcf.o gvcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfcall.o vcfcall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o mcall.o mcall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfannotate.o vcfannotate.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o reheader.o reheader.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o tsv2vcf.o tsv2vcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfhead.o vcfhead.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o HMM.o HMM.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfcnv.o vcfcnv.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfconvert.o vcfconvert.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bin.o bin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o ploidy.o ploidy.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o convert.o convert.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o version.o version.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o hclust.o hclust.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o consensus.o consensus.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o smpl_ilist.o smpl_ilist.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o regidx.o regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfbuf.o vcfbuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o mpileup.o mpileup.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf.o bam2bcf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam2bcf_indel.o bam2bcf_indel.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o cols.o cols.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o vcfsort.o vcfsort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o dist.o dist.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o bam_sample.o bam_sample.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o extsort.o extsort.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o em.o em.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o ccall.o ccall.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o kmin.o kmin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o str_finder.o str_finder.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o prob1.o prob1.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o abuf.o abuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -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 -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o test/test-rbuf.o test/test-rbuf.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o peakfit.o peakfit.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.   -DPLUGINPATH='"/usr/local/libexec/bcftools:/usr/libexec/bcftools"' -c -o vcfplugin.o vcfplugin.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o test/test-regidx.o test/test-regidx.c
gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -c -o csq.o csq.c
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -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 -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/GTisec.so version.c plugins/GTisec.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/add-variantkey.so version.c plugins/add-variantkey.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/af-dist.so bin.c version.c plugins/af-dist.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/allele-length.so version.c plugins/allele-length.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/check-ploidy.so version.c plugins/check-ploidy.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/check-sparsity.so version.c plugins/check-sparsity.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/counts.so version.c plugins/counts.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/contrast.so version.c plugins/contrast.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/color-chrs.so HMM.c version.c plugins/color-chrs.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/fill-AN-AC.so version.c plugins/fill-AN-AC.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/dosage.so version.c plugins/dosage.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/ad-bias.so convert.c version.c plugins/ad-bias.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/fixploidy.so ploidy.c regidx.c version.c plugins/fixploidy.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/fill-tags.so version.c plugins/fill-tags.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/frameshifts.so version.c plugins/frameshifts.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/fixref.so version.c plugins/fixref.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/gvcfz.so version.c plugins/gvcfz.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/guess-ploidy.so version.c plugins/guess-ploidy.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/impute-info.so version.c plugins/impute-info.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/isecGT.so smpl_ilist.c version.c plugins/isecGT.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/missing2ref.so version.c plugins/missing2ref.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/indel-stats.so version.c plugins/indel-stats.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/mendelian.so version.c plugins/mendelian.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/remove-overlaps.so version.c plugins/remove-overlaps.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/parental-origin.so version.c plugins/parental-origin.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/prune.so version.c plugins/prune.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/scatter.so version.c plugins/scatter.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/setGT.so version.c plugins/setGT.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/smpl-stats.so version.c plugins/smpl-stats.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fwrapv -fno-strict-aliasing -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64  -I/usr/lib64/perl5/CORE  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/fill-from-fasta.so filter.c version.c plugins/fill-from-fasta.c  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/tag2tag.so version.c plugins/tag2tag.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/split.so version.c plugins/split.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/split-vep.so version.c plugins/split-vep.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/trio-stats.so version.c plugins/trio-stats.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/trio-switch-rate.so version.c plugins/trio-switch-rate.c 
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -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 -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.   -DUSE_GPL -c -o main.o main.c
gcc -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o test/test-rbuf test/test-rbuf.o -lz  
gcc -fPIC -shared -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I.    -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o plugins/trio-dnm2.so version.c plugins/trio-dnm2.c 
gcc  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -o test/test-regidx test/test-regidx.o regidx.o -lhts -lpthread -lz  
gcc -rdynamic  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld -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 bam_sample.o vcfsort.o cols.o extsort.o dist.o abuf.o ccall.o em.o prob1.o kmin.o str_finder.o polysomy.o peakfit.o vcfplugin.o -lhts -lm -lz   -lgsl -lgslcblas -Wl,--enable-new-dtags -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1  -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1  -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.tEwbJv
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64
++ dirname /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FCFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld'
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd bcftools-1.15.1
+ /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64 'INSTALL=/usr/bin/install -p'
mkdir -p -m 755 /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/bin /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/man/man1 /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools
/usr/bin/install -p bcftools /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/bin
/usr/bin/install -p misc/color-chrs.pl misc/gff2gff.py misc/guess-ploidy.py misc/plot-vcfstats misc/plot-roh.py misc/run-roh.pl misc/vcfutils.pl /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/bin
/usr/bin/install -p -m 644 doc/bcftools.1 /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/man/man1
/usr/bin/install -p plugins/*.so /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools
+ /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 1.15.1-1.fc38 --unique-debug-suffix -1.15.1-1.fc38.aarch64 --unique-debug-src-base bcftools-1.15.1-1.fc38.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/bcftools-1.15.1
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/bin/bcftools
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/ad-bias.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/GTisec.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/GTsubset.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/add-variantkey.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/af-dist.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/allele-length.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/check-ploidy.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/check-sparsity.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/color-chrs.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/contrast.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/counts.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/dosage.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/fill-AN-AC.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/fill-from-fasta.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/fill-tags.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/fixploidy.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/fixref.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/frameshifts.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/guess-ploidy.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/gvcfz.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/impute-info.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/indel-stats.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/isecGT.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/mendelian.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/missing2ref.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/parental-origin.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/prune.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/remove-overlaps.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/scatter.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/setGT.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/smpl-stats.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/split-vep.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/split.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/tag2tag.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/trio-dnm2.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/trio-stats.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/trio-switch-rate.so
extracting debug info from /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/libexec/bcftools/variantkey-hex.so
original debug info size: 6136kB, size after compression: 5364kB
/usr/bin/sepdebugcrcfix: Updated 39 CRC32s, 0 CRC32s did match.
5400 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
+ /usr/lib/rpm/brp-remove-la-files
+ /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0
+ /usr/lib/rpm/redhat/brp-python-hardlink
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.8Ntcau
+ umask 022
+ cd /builddir/build/BUILD
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection'
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules'
+ export FCFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/bcftools-1.15.1/.package_note-bcftools-1.15.1-1.fc38.aarch64.ld'
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ '[' -f /usr/lib/rpm/generate-rpm-note.sh ']'
+ /usr/lib/rpm/generate-rpm-note.sh bcftools 1.15.1-1.fc38 aarch64
+ cd bcftools-1.15.1
+ ldd bcftools
+ grep -E '/lib(64)?/libhts\.so\.'
	libhts.so.3 => /lib64/libhts.so.3 (0x0000ffffa6890000)
+ make test
./test/test-rbuf
Inserted 1-9 starting at offset 5:
  5  6  7  8  9  0  1  2  3
  1  2  3  4  5  6  7  8  9
4th is 4
Deleting 1-2:
  7  8  9  0  1  2  3
  3  4  5  6  7  8  9
Prepending 0-8:
  8  9  0  1  2  3  4  5  6  7
  8  7  6  5  4  3  2  1  0  3
Expanding:
  8  9 10 11 12 13 14 15 16 17
  8  7  6  5  4  3  2  1  0  3
./test/test-regidx
REF_PATH=: ./test/test.pl --plugins --exec bgzip= --exec tabix= --htsdir= ${TEST_OPTS:-}
./test/test.pl: module IO::Pty not found; skipping usage tests
test_usage:
	bcftools
test_tabix:
	tabix /tmp/DOjmofoope/merge.a.vcf.gz 2:3199812-3199812
.. ok

test_tabix:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/merge.a.bcf 2:3199812-3199812
.. ok

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

test_tabix:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/merge.a.bcf 1:3000151-3000151
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.bcf chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.vcf.gz chr20
.. ok

test_index:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -H /tmp/DOjmofoope/large_chrom_csi_limit.bcf chr20
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -s /tmp/DOjmofoope/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -s /tmp/DOjmofoope/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -s /tmp/DOjmofoope/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/idx.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/idx.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/idx.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/idx.bcf.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -s /tmp/DOjmofoope/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -s /tmp/DOjmofoope/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -s /tmp/DOjmofoope/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/empty.vcf.gz
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/empty.vcf.gz.csi
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/empty.bcf
.. ok

test_vcf_idxstats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools index -n /tmp/DOjmofoope/empty.bcf.csi
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools stats -s - /tmp/DOjmofoope/check.vcf.gz | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_check:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/check.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools stats -s - | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID	'
.. ok

test_vcf_check_merge:
	/builddir/build/BUILD/bcftools-1.15.1/misc/plot-vcfstats -m /tmp/DOjmofoope/check.1.chk /tmp/DOjmofoope/check.2.chk /tmp/DOjmofoope/check.3.chk /tmp/DOjmofoope/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-1.15.1/bcftools stats -s -  /tmp/DOjmofoope/stats.a.vcf.gz /tmp/DOjmofoope/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools stats -s B  /tmp/DOjmofoope/stats.a.vcf.gz /tmp/DOjmofoope/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_stats:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools stats -s -  /tmp/DOjmofoope/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID	'
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -n =2 /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -n =2 /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -n =2 -i"STRLEN(REF)==2" /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -n =2 -i"STRLEN(REF)==2" /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -n =2 -c both /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -n =2 -c both /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -n =2 -c any /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -n =2 -c any /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -C -c any /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -C -c any /tmp/DOjmofoope/isec.a.vcf.gz /tmp/DOjmofoope/isec.b.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec --no-version   -T /tmp/DOjmofoope/isec.tab.gz /tmp/DOjmofoope/isec.a.vcf.gz
.. ok

test_vcf_isec2:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob  -T /tmp/DOjmofoope/isec.tab.gz /tmp/DOjmofoope/isec.a.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/DOjmofoope/isec-miss.1.1.vcf.gz /tmp/DOjmofoope/isec-miss.1.2.vcf.gz /tmp/DOjmofoope/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/DOjmofoope/isec-miss.1.1.vcf.gz /tmp/DOjmofoope/isec-miss.1.2.vcf.gz /tmp/DOjmofoope/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -R /builddir/build/BUILD/bcftools-1.15.1/test/isec-miss.1.regs.txt -n +1 /tmp/DOjmofoope/isec-miss.1.1.vcf.gz /tmp/DOjmofoope/isec-miss.1.2.vcf.gz /tmp/DOjmofoope/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -R /builddir/build/BUILD/bcftools-1.15.1/test/isec-miss.1.regs.txt -n +1 /tmp/DOjmofoope/isec-miss.1.1.vcf.gz /tmp/DOjmofoope/isec-miss.1.2.vcf.gz /tmp/DOjmofoope/isec-miss.1.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/DOjmofoope/isec-miss.2.1.vcf.gz /tmp/DOjmofoope/isec-miss.2.2.vcf.gz /tmp/DOjmofoope/isec-miss.2.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/DOjmofoope/isec-miss.2.1.vcf.gz /tmp/DOjmofoope/isec-miss.2.2.vcf.gz /tmp/DOjmofoope/isec-miss.2.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -R /builddir/build/BUILD/bcftools-1.15.1/test/isec-miss.1.regs.txt -n +1 /tmp/DOjmofoope/isec-miss.2.1.vcf.gz /tmp/DOjmofoope/isec-miss.2.2.vcf.gz /tmp/DOjmofoope/isec-miss.2.3.vcf.gz
.. ok

test_vcf_isec:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools isec -Ob -R /builddir/build/BUILD/bcftools-1.15.1/test/isec-miss.1.regs.txt -n +1 /tmp/DOjmofoope/isec-miss.2.1.vcf.gz /tmp/DOjmofoope/isec-miss.2.2.vcf.gz /tmp/DOjmofoope/isec-miss.2.3.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -i AF:join /tmp/DOjmofoope/merge.join.a.vcf.gz /tmp/DOjmofoope/merge.join.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -i AF:join /tmp/DOjmofoope/merge.join.a.vcf.gz /tmp/DOjmofoope/merge.join.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -i AF:join /tmp/DOjmofoope/merge.join.a.bcf /tmp/DOjmofoope/merge.join.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -i AF:join /tmp/DOjmofoope/merge.join.a.bcf /tmp/DOjmofoope/merge.join.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 1 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 1 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 1 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 1 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 2 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 2 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 2 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 2 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 3 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 3 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 3 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 3 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 4 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 4 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 4 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 4 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 5 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 5 /tmp/DOjmofoope/merge.LPL.a.vcf.gz /tmp/DOjmofoope/merge.LPL.b.vcf.gz /tmp/DOjmofoope/merge.LPL.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -L 5 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -L 5 /tmp/DOjmofoope/merge.LPL.a.bcf /tmp/DOjmofoope/merge.LPL.b.bcf /tmp/DOjmofoope/merge.LPL.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples /tmp/DOjmofoope/merge.a.vcf.gz /tmp/DOjmofoope/merge.b.vcf.gz /tmp/DOjmofoope/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples /tmp/DOjmofoope/merge.a.vcf.gz /tmp/DOjmofoope/merge.b.vcf.gz /tmp/DOjmofoope/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples /tmp/DOjmofoope/merge.a.bcf /tmp/DOjmofoope/merge.b.bcf /tmp/DOjmofoope/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples /tmp/DOjmofoope/merge.a.bcf /tmp/DOjmofoope/merge.b.bcf /tmp/DOjmofoope/merge.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -Fx /tmp/DOjmofoope/merge.a.vcf.gz /tmp/DOjmofoope/merge.b.vcf.gz /tmp/DOjmofoope/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -Fx /tmp/DOjmofoope/merge.a.vcf.gz /tmp/DOjmofoope/merge.b.vcf.gz /tmp/DOjmofoope/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -Fx /tmp/DOjmofoope/merge.a.bcf /tmp/DOjmofoope/merge.b.bcf /tmp/DOjmofoope/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -Fx /tmp/DOjmofoope/merge.a.bcf /tmp/DOjmofoope/merge.b.bcf /tmp/DOjmofoope/merge.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -0 /tmp/DOjmofoope/merge.a.vcf.gz /tmp/DOjmofoope/merge.b.vcf.gz /tmp/DOjmofoope/merge.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -0 /tmp/DOjmofoope/merge.a.vcf.gz /tmp/DOjmofoope/merge.b.vcf.gz /tmp/DOjmofoope/merge.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -0 /tmp/DOjmofoope/merge.a.bcf /tmp/DOjmofoope/merge.b.bcf /tmp/DOjmofoope/merge.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -0 /tmp/DOjmofoope/merge.a.bcf /tmp/DOjmofoope/merge.b.bcf /tmp/DOjmofoope/merge.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -m none /tmp/DOjmofoope/merge.2.a.vcf.gz /tmp/DOjmofoope/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -m none /tmp/DOjmofoope/merge.2.a.vcf.gz /tmp/DOjmofoope/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -m none /tmp/DOjmofoope/merge.2.a.bcf /tmp/DOjmofoope/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -m none /tmp/DOjmofoope/merge.2.a.bcf /tmp/DOjmofoope/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -m both /tmp/DOjmofoope/merge.2.a.vcf.gz /tmp/DOjmofoope/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -m both /tmp/DOjmofoope/merge.2.a.vcf.gz /tmp/DOjmofoope/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -m both /tmp/DOjmofoope/merge.2.a.bcf /tmp/DOjmofoope/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -m both /tmp/DOjmofoope/merge.2.a.bcf /tmp/DOjmofoope/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -m all /tmp/DOjmofoope/merge.2.a.vcf.gz /tmp/DOjmofoope/merge.2.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -m all /tmp/DOjmofoope/merge.2.a.vcf.gz /tmp/DOjmofoope/merge.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -m all /tmp/DOjmofoope/merge.2.a.bcf /tmp/DOjmofoope/merge.2.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -m all /tmp/DOjmofoope/merge.2.a.bcf /tmp/DOjmofoope/merge.2.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/DOjmofoope/merge.3.a.vcf.gz /tmp/DOjmofoope/merge.3.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/DOjmofoope/merge.3.a.vcf.gz /tmp/DOjmofoope/merge.3.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/DOjmofoope/merge.3.a.bcf /tmp/DOjmofoope/merge.3.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/DOjmofoope/merge.3.a.bcf /tmp/DOjmofoope/merge.3.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -m id /tmp/DOjmofoope/merge.4.a.vcf.gz /tmp/DOjmofoope/merge.4.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -m id /tmp/DOjmofoope/merge.4.a.vcf.gz /tmp/DOjmofoope/merge.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples -m id /tmp/DOjmofoope/merge.4.a.bcf /tmp/DOjmofoope/merge.4.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples -m id /tmp/DOjmofoope/merge.4.a.bcf /tmp/DOjmofoope/merge.4.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/gvcf.merge.1.vcf.gz /tmp/DOjmofoope/gvcf.merge.2.vcf.gz /tmp/DOjmofoope/gvcf.merge.3.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/gvcf.merge.1.vcf.gz /tmp/DOjmofoope/gvcf.merge.2.vcf.gz /tmp/DOjmofoope/gvcf.merge.3.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/gvcf.merge.1.bcf /tmp/DOjmofoope/gvcf.merge.2.bcf /tmp/DOjmofoope/gvcf.merge.3.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/gvcf.merge.1.bcf /tmp/DOjmofoope/gvcf.merge.2.bcf /tmp/DOjmofoope/gvcf.merge.3.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/merge.gvcf.2.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.2.b.vcf.gz /tmp/DOjmofoope/merge.gvcf.2.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/merge.gvcf.2.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.2.b.vcf.gz /tmp/DOjmofoope/merge.gvcf.2.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - -i SRC:join /tmp/DOjmofoope/merge.gvcf.3.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.3.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - -i SRC:join /tmp/DOjmofoope/merge.gvcf.3.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.3.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/merge.gvcf.4.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.4.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/merge.gvcf.4.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/merge.gvcf.4.a.bcf /tmp/DOjmofoope/merge.gvcf.4.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/merge.gvcf.4.a.bcf /tmp/DOjmofoope/merge.gvcf.4.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.5.a.vcf.gz /tmp/DOjmofoope/merge.5.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.5.a.vcf.gz /tmp/DOjmofoope/merge.5.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.5.a.bcf /tmp/DOjmofoope/merge.5.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.5.a.bcf /tmp/DOjmofoope/merge.5.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.6.a.vcf.gz /tmp/DOjmofoope/merge.6.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.6.a.vcf.gz /tmp/DOjmofoope/merge.6.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.6.a.bcf /tmp/DOjmofoope/merge.6.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.6.a.bcf /tmp/DOjmofoope/merge.6.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/merge.gvcf.7.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.7.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/merge.gvcf.7.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.7.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/merge.gvcf.7.a.bcf /tmp/DOjmofoope/merge.gvcf.7.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/merge.gvcf.7.a.bcf /tmp/DOjmofoope/merge.gvcf.7.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/merge.gvcf.8.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/merge.gvcf.8.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf - /tmp/DOjmofoope/merge.gvcf.8.a.bcf /tmp/DOjmofoope/merge.gvcf.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf - /tmp/DOjmofoope/merge.gvcf.8.a.bcf /tmp/DOjmofoope/merge.gvcf.8.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples /tmp/DOjmofoope/merge.7.a.vcf.gz /tmp/DOjmofoope/merge.7.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples /tmp/DOjmofoope/merge.7.a.vcf.gz /tmp/DOjmofoope/merge.7.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --force-samples /tmp/DOjmofoope/merge.7.a.bcf /tmp/DOjmofoope/merge.7.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --force-samples /tmp/DOjmofoope/merge.7.a.bcf /tmp/DOjmofoope/merge.7.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/merge.gvcf.9a.vcf.gz /tmp/DOjmofoope/merge.gvcf.9b.vcf.gz /tmp/DOjmofoope/merge.gvcf.9c.vcf.gz /tmp/DOjmofoope/merge.gvcf.9d.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/merge.gvcf.9a.vcf.gz /tmp/DOjmofoope/merge.gvcf.9b.vcf.gz /tmp/DOjmofoope/merge.gvcf.9c.vcf.gz /tmp/DOjmofoope/merge.gvcf.9d.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/merge.gvcf.9a.bcf /tmp/DOjmofoope/merge.gvcf.9b.bcf /tmp/DOjmofoope/merge.gvcf.9c.bcf /tmp/DOjmofoope/merge.gvcf.9d.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/merge.gvcf.9a.bcf /tmp/DOjmofoope/merge.gvcf.9b.bcf /tmp/DOjmofoope/merge.gvcf.9c.bcf /tmp/DOjmofoope/merge.gvcf.9d.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa -r 22:21-23 /tmp/DOjmofoope/merge.gvcf.9a.vcf.gz /tmp/DOjmofoope/merge.gvcf.9b.vcf.gz /tmp/DOjmofoope/merge.gvcf.9c.vcf.gz /tmp/DOjmofoope/merge.gvcf.9d.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa -r 22:21-23 /tmp/DOjmofoope/merge.gvcf.9a.vcf.gz /tmp/DOjmofoope/merge.gvcf.9b.vcf.gz /tmp/DOjmofoope/merge.gvcf.9c.vcf.gz /tmp/DOjmofoope/merge.gvcf.9d.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa -r 22:21-23 /tmp/DOjmofoope/merge.gvcf.9a.bcf /tmp/DOjmofoope/merge.gvcf.9b.bcf /tmp/DOjmofoope/merge.gvcf.9c.bcf /tmp/DOjmofoope/merge.gvcf.9d.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa -r 22:21-23 /tmp/DOjmofoope/merge.gvcf.9a.bcf /tmp/DOjmofoope/merge.gvcf.9b.bcf /tmp/DOjmofoope/merge.gvcf.9c.bcf /tmp/DOjmofoope/merge.gvcf.9d.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/merge.gvcf.9a.vcf.gz /tmp/DOjmofoope/merge.gvcf.9b.vcf.gz /tmp/DOjmofoope/merge.gvcf.9c.vcf.gz /tmp/DOjmofoope/merge.gvcf.9d.vcf.gz /tmp/DOjmofoope/merge.gvcf.9e.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/merge.gvcf.9a.vcf.gz /tmp/DOjmofoope/merge.gvcf.9b.vcf.gz /tmp/DOjmofoope/merge.gvcf.9c.vcf.gz /tmp/DOjmofoope/merge.gvcf.9d.vcf.gz /tmp/DOjmofoope/merge.gvcf.9e.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/merge.gvcf.9a.bcf /tmp/DOjmofoope/merge.gvcf.9b.bcf /tmp/DOjmofoope/merge.gvcf.9c.bcf /tmp/DOjmofoope/merge.gvcf.9d.bcf /tmp/DOjmofoope/merge.gvcf.9e.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/merge.gvcf.9a.bcf /tmp/DOjmofoope/merge.gvcf.9b.bcf /tmp/DOjmofoope/merge.gvcf.9c.bcf /tmp/DOjmofoope/merge.gvcf.9d.bcf /tmp/DOjmofoope/merge.gvcf.9e.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa -r 22:21-23 /tmp/DOjmofoope/merge.gvcf.9a.vcf.gz /tmp/DOjmofoope/merge.gvcf.9b.vcf.gz /tmp/DOjmofoope/merge.gvcf.9c.vcf.gz /tmp/DOjmofoope/merge.gvcf.9d.vcf.gz /tmp/DOjmofoope/merge.gvcf.9e.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa -r 22:21-23 /tmp/DOjmofoope/merge.gvcf.9a.vcf.gz /tmp/DOjmofoope/merge.gvcf.9b.vcf.gz /tmp/DOjmofoope/merge.gvcf.9c.vcf.gz /tmp/DOjmofoope/merge.gvcf.9d.vcf.gz /tmp/DOjmofoope/merge.gvcf.9e.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa -r 22:21-23 /tmp/DOjmofoope/merge.gvcf.9a.bcf /tmp/DOjmofoope/merge.gvcf.9b.bcf /tmp/DOjmofoope/merge.gvcf.9c.bcf /tmp/DOjmofoope/merge.gvcf.9d.bcf /tmp/DOjmofoope/merge.gvcf.9e.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --gvcf /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa -r 22:21-23 /tmp/DOjmofoope/merge.gvcf.9a.bcf /tmp/DOjmofoope/merge.gvcf.9b.bcf /tmp/DOjmofoope/merge.gvcf.9c.bcf /tmp/DOjmofoope/merge.gvcf.9d.bcf /tmp/DOjmofoope/merge.gvcf.9e.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.gvcf.10.a.bcf /tmp/DOjmofoope/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.gvcf.10.a.bcf /tmp/DOjmofoope/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -m none /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -m none /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -m none /tmp/DOjmofoope/merge.gvcf.10.a.bcf /tmp/DOjmofoope/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -m none /tmp/DOjmofoope/merge.gvcf.10.a.bcf /tmp/DOjmofoope/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa /tmp/DOjmofoope/merge.gvcf.10.a.bcf /tmp/DOjmofoope/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa /tmp/DOjmofoope/merge.gvcf.10.a.bcf /tmp/DOjmofoope/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa -m none /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa -m none /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa -m none /tmp/DOjmofoope/merge.gvcf.10.a.bcf /tmp/DOjmofoope/merge.gvcf.10.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa -m none /tmp/DOjmofoope/merge.gvcf.10.a.bcf /tmp/DOjmofoope/merge.gvcf.10.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa /tmp/DOjmofoope/merge.gvcf.10.b.bcf /tmp/DOjmofoope/merge.gvcf.10.a.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa /tmp/DOjmofoope/merge.gvcf.10.b.bcf /tmp/DOjmofoope/merge.gvcf.10.a.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa -m none /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa -m none /tmp/DOjmofoope/merge.gvcf.10.b.vcf.gz /tmp/DOjmofoope/merge.gvcf.10.a.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa -m none /tmp/DOjmofoope/merge.gvcf.10.b.bcf /tmp/DOjmofoope/merge.gvcf.10.a.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -g /builddir/build/BUILD/bcftools-1.15.1/test/merge.gvcf.10.fa -m none /tmp/DOjmofoope/merge.gvcf.10.b.bcf /tmp/DOjmofoope/merge.gvcf.10.a.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.noidx.a.vcf.gz /tmp/DOjmofoope/merge.noidx.b.vcf.gz /tmp/DOjmofoope/merge.noidx.c.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.noidx.a.vcf.gz /tmp/DOjmofoope/merge.noidx.b.vcf.gz /tmp/DOjmofoope/merge.noidx.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.noidx.a.bcf /tmp/DOjmofoope/merge.noidx.b.bcf /tmp/DOjmofoope/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.noidx.a.bcf /tmp/DOjmofoope/merge.noidx.b.bcf /tmp/DOjmofoope/merge.noidx.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --no-index /builddir/build/BUILD/bcftools-1.15.1/test/merge.noidx.a.vcf /builddir/build/BUILD/bcftools-1.15.1/test/merge.noidx.b.vcf /builddir/build/BUILD/bcftools-1.15.1/test/merge.noidx.c.vcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --no-index /builddir/build/BUILD/bcftools-1.15.1/test/merge.noidx.a.vcf /builddir/build/BUILD/bcftools-1.15.1/test/merge.noidx.b.vcf /builddir/build/BUILD/bcftools-1.15.1/test/merge.noidx.c.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version --no-index /tmp/DOjmofoope/merge.noidx.a.bcf /tmp/DOjmofoope/merge.noidx.b.bcf /tmp/DOjmofoope/merge.noidx.c.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob --no-index /tmp/DOjmofoope/merge.noidx.a.bcf /tmp/DOjmofoope/merge.noidx.b.bcf /tmp/DOjmofoope/merge.noidx.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.8.a.vcf.gz /tmp/DOjmofoope/merge.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.8.a.vcf.gz /tmp/DOjmofoope/merge.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.8.a.bcf /tmp/DOjmofoope/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.8.a.bcf /tmp/DOjmofoope/merge.8.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -i AN:sum,AC:sum /tmp/DOjmofoope/merge.8.a.vcf.gz /tmp/DOjmofoope/merge.8.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -i AN:sum,AC:sum /tmp/DOjmofoope/merge.8.a.vcf.gz /tmp/DOjmofoope/merge.8.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -i AN:sum,AC:sum /tmp/DOjmofoope/merge.8.a.bcf /tmp/DOjmofoope/merge.8.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -i AN:sum,AC:sum /tmp/DOjmofoope/merge.8.a.bcf /tmp/DOjmofoope/merge.8.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.9.a.vcf.gz /tmp/DOjmofoope/merge.9.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.9.a.vcf.gz /tmp/DOjmofoope/merge.9.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version  /tmp/DOjmofoope/merge.9.a.bcf /tmp/DOjmofoope/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob  /tmp/DOjmofoope/merge.9.a.bcf /tmp/DOjmofoope/merge.9.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -i AN:sum,AC:sum /tmp/DOjmofoope/merge.9.a.vcf.gz /tmp/DOjmofoope/merge.9.b.vcf.gz
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -i AN:sum,AC:sum /tmp/DOjmofoope/merge.9.a.vcf.gz /tmp/DOjmofoope/merge.9.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge --no-version -i AN:sum,AC:sum /tmp/DOjmofoope/merge.9.a.bcf /tmp/DOjmofoope/merge.9.b.bcf
.. ok

test_vcf_merge:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools merge -Ob -i AN:sum,AC:sum /tmp/DOjmofoope/merge.9.a.bcf /tmp/DOjmofoope/merge.9.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"' /tmp/DOjmofoope/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"' /tmp/DOjmofoope/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"' /tmp/DOjmofoope/query.string.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.string.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools query -f '%RSX\t%VKX\n' /tmp/DOjmofoope/query.variantkey.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.variantkey.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%RSX\t%VKX\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XRI\n' -i'XRI[*]>1111' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XRI\n' -i'XRI[*]>1111'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XRF\n' -i'XRF[*]=2e6' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XRF\n' -i'XRF[*]=2e6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[2]~"H"' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[2]~"H"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[*]~"H"' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XGS\n' -i'XGS[*]~"H"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/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/DOjmofoope/view.vectors.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.vectors.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"' /tmp/DOjmofoope/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"' /tmp/DOjmofoope/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"' /tmp/DOjmofoope/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"' /tmp/DOjmofoope/query.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n' /tmp/DOjmofoope/query.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'IINT="."'  -f'%POS %IINT\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'IINT="."'  -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'IINT!="."' -f'%POS %IINT\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'IINT!="."' -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'IINT!="."' -f'%POS %IINT\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'IINT!="."' -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'IINT="."'  -f'%POS %IINT\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'IINT="."'  -f'%POS %IINT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'IFLT="."'  -f'%POS %IFLT\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'IFLT="."'  -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'IFLT="."'  -f'%POS %IFLT\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'IFLT="."'  -f'%POS %IFLT\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'ISTR="."'  -f'%POS %ISTR\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'ISTR="."'  -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'ISTR="."'  -f'%POS %ISTR\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'ISTR="."'  -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n' /tmp/DOjmofoope/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n' /tmp/DOjmofoope/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n' /tmp/DOjmofoope/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n' /tmp/DOjmofoope/filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%LINE' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%LINE'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"' /tmp/DOjmofoope/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"' /tmp/DOjmofoope/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"' /tmp/DOjmofoope/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"' /tmp/DOjmofoope/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"' /tmp/DOjmofoope/query.filter-type.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter-type.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/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/DOjmofoope/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter-missing-floats.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/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/DOjmofoope/filter-missing-floats.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter-missing-floats.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n' /tmp/DOjmofoope/missing.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"' /tmp/DOjmofoope/query.filter.2.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2' /tmp/DOjmofoope/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."' /tmp/DOjmofoope/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 |  FMT/DP="."' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 |  FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 &  FMT/GQ=589' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 &  FMT/GQ=589'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1' /tmp/DOjmofoope/view.filter.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.filter.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"' /tmp/DOjmofoope/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" &  GT~"2"' /tmp/DOjmofoope/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" &  GT~"2"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1' /tmp/DOjmofoope/query.filter.3.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.3.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS  %SAMPLE  %AD\n]\n' -i'AD[:0]+AD[:1] > 12' /tmp/DOjmofoope/filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS  %SAMPLE  %AD\n]\n' -i'AD[:0]+AD[:1] > 12'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"' /tmp/DOjmofoope/query.filter.4.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.4.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%ID\n' -i 'ID=@/builddir/build/BUILD/bcftools-1.15.1/test/query.56.out' /tmp/DOjmofoope/view.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/view.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%ID\n' -i 'ID=@/builddir/build/BUILD/bcftools-1.15.1/test/query.56.out'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01' /tmp/DOjmofoope/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD[:0],FMT/AD[:1])>0.01' /tmp/DOjmofoope/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01' /tmp/DOjmofoope/query.filter.5.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.5.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)' /tmp/DOjmofoope/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)' /tmp/DOjmofoope/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)' /tmp/DOjmofoope/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)' /tmp/DOjmofoope/query.negative.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.negative.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1' /tmp/DOjmofoope/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1' /tmp/DOjmofoope/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1' /tmp/DOjmofoope/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1' /tmp/DOjmofoope/query.filter.11.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT %AD %PBINOM(AD)\n]' -i'phred(binom(FMT/AD))>=0' /tmp/DOjmofoope/query.pbinom.1.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.pbinom.1.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS %SAMPLE %GT %AD %PBINOM(AD)\n]' -i'phred(binom(FMT/AD))>=0'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904' /tmp/DOjmofoope/query.filter.6.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.6.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6' /tmp/DOjmofoope/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7' /tmp/DOjmofoope/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2' /tmp/DOjmofoope/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75' /tmp/DOjmofoope/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2' /tmp/DOjmofoope/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75' /tmp/DOjmofoope/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2' /tmp/DOjmofoope/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5' /tmp/DOjmofoope/query.filter.7.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.7.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1' /tmp/DOjmofoope/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.8.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1' /tmp/DOjmofoope/query.filter.8.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.8.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]' /tmp/DOjmofoope/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.9.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]' /tmp/DOjmofoope/query.filter.9.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.9.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS  %SAMPLE  %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5' /tmp/DOjmofoope/query.filter.13.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.13.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS  %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2' /tmp/DOjmofoope/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS  %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS  %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2' /tmp/DOjmofoope/query.filter.10.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.10.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS  %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n' /tmp/DOjmofoope/query.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0 /tmp/DOjmofoope/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3 /tmp/DOjmofoope/query.filter.12.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.12.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.11.txt /tmp/DOjmofoope/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -l -S /builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.11.txt /tmp/DOjmofoope/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l -S /builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f "[%SAMPLE %GT\n]" -S ^/builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.11.txt /tmp/DOjmofoope/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f "[%SAMPLE %GT\n]" -S ^/builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -l -S ^/builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.11.txt /tmp/DOjmofoope/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l -S ^/builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.11.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.txt /tmp/DOjmofoope/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f "[%SAMPLE %GT\n]" -S /builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -l -S /builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.txt /tmp/DOjmofoope/query.smpl.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.smpl.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l -S /builddir/build/BUILD/bcftools-1.15.1/test/query.smpl.txt
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%ID\n' -i'ID~"s12"' /tmp/DOjmofoope/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%ID\n' -i'ID~"s12"'
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%ID\n' -i'ID="rs123"' /tmp/DOjmofoope/query.filter.id.vcf.gz
.. ok

test_vcf_query:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/query.filter.id.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%ID\n' -i'ID="rs123"'
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -cx -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa /tmp/DOjmofoope/norm.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -cx -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa /tmp/DOjmofoope/norm.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m- /tmp/DOjmofoope/norm.split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m- /tmp/DOjmofoope/norm.split.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m- /tmp/DOjmofoope/norm.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m- /tmp/DOjmofoope/norm.split.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m- --force /tmp/DOjmofoope/norm.split.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m- --force /tmp/DOjmofoope/norm.split.3.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m- /tmp/DOjmofoope/norm.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m- /tmp/DOjmofoope/norm.split.4.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m- --keep-sum AD /tmp/DOjmofoope/norm.split.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m- --keep-sum AD /tmp/DOjmofoope/norm.split.4.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa /tmp/DOjmofoope/norm.split.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa /tmp/DOjmofoope/norm.split.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m+ /tmp/DOjmofoope/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m+ /tmp/DOjmofoope/norm.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m+ /tmp/DOjmofoope/norm.merge.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m+ /tmp/DOjmofoope/norm.merge.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m+ /tmp/DOjmofoope/norm.merge.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m+ /tmp/DOjmofoope/norm.merge.3.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m+ -s /tmp/DOjmofoope/norm.merge.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m+ -s /tmp/DOjmofoope/norm.merge.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -Nc s -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa /tmp/DOjmofoope/norm.setref.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -Nc s -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa /tmp/DOjmofoope/norm.setref.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa /tmp/DOjmofoope/norm.telomere.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa /tmp/DOjmofoope/norm.telomere.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d snps /tmp/DOjmofoope/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d snps /tmp/DOjmofoope/norm.rmdup.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d indels /tmp/DOjmofoope/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d indels /tmp/DOjmofoope/norm.rmdup.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d both /tmp/DOjmofoope/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d both /tmp/DOjmofoope/norm.rmdup.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d all /tmp/DOjmofoope/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d all /tmp/DOjmofoope/norm.rmdup.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d none /tmp/DOjmofoope/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d none /tmp/DOjmofoope/norm.rmdup.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d exact /tmp/DOjmofoope/norm.rmdup.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d exact /tmp/DOjmofoope/norm.rmdup.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d none /tmp/DOjmofoope/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d none /tmp/DOjmofoope/norm.rmdup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d exact /tmp/DOjmofoope/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d exact /tmp/DOjmofoope/norm.rmdup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d indels /tmp/DOjmofoope/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d indels /tmp/DOjmofoope/norm.rmdup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d any /tmp/DOjmofoope/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d any /tmp/DOjmofoope/norm.rmdup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d both /tmp/DOjmofoope/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d both /tmp/DOjmofoope/norm.rmdup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -d snps /tmp/DOjmofoope/norm.rmdup.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -d snps /tmp/DOjmofoope/norm.rmdup.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -c s -a -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.2.fa /tmp/DOjmofoope/norm.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -c s -a -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.2.fa /tmp/DOjmofoope/norm.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -c s -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.iupac.fa /tmp/DOjmofoope/norm.iupac.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -c s -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.iupac.fa /tmp/DOjmofoope/norm.iupac.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -c s -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.3.fa /tmp/DOjmofoope/norm.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -c s -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.3.fa /tmp/DOjmofoope/norm.3.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  --atomize --old-rec-tag OLD_REC /tmp/DOjmofoope/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  --atomize --old-rec-tag OLD_REC /tmp/DOjmofoope/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/DOjmofoope/atomize.split.1.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/DOjmofoope/atomize.split.1.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  --atomize --old-rec-tag OLD_REC /tmp/DOjmofoope/atomize.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  --atomize --old-rec-tag OLD_REC /tmp/DOjmofoope/atomize.split.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/DOjmofoope/atomize.split.2.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/DOjmofoope/atomize.split.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  --atomize --atom-overlaps . /tmp/DOjmofoope/atomize.split.3.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  --atomize --atom-overlaps . /tmp/DOjmofoope/atomize.split.3.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m +both /tmp/DOjmofoope/norm.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m +both /tmp/DOjmofoope/norm.4.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm --no-version  -m +any /tmp/DOjmofoope/norm.4.vcf.gz
.. ok

test_vcf_norm:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools norm -Ob  -m +any /tmp/DOjmofoope/norm.4.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -aUc1 -C1 -s NA00002 -v snps /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -aUc1 -C1 -s NA00002 -v snps /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -f PASS -Xks NA00003 /tmp/DOjmofoope/view.vcf.gz -r20,Y
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -f PASS -Xks NA00003 /tmp/DOjmofoope/view.vcf.gz -r20,Y | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -xs NA00003 /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -xs NA00003 /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -p /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -p /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -P /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -P /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -hm2 -M2 -q0.3 -Q0.7 /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -hm2 -M2 -q0.3 -Q0.7 /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -Hu /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -GVsnps /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -GVsnps /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -ne 'INDEL=1 || PV4[0]<0.006' /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -ne 'INDEL=1 || PV4[0]<0.006' /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -s ^NA00003 /tmp/DOjmofoope/view.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -s ^NA00003 /tmp/DOjmofoope/view.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version  /tmp/DOjmofoope/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob  /tmp/DOjmofoope/view.omitgenotypes.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -G /tmp/DOjmofoope/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -G /tmp/DOjmofoope/view.omitgenotypes.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -HG /tmp/DOjmofoope/view.omitgenotypes.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -a /tmp/DOjmofoope/many.alleles.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -a /tmp/DOjmofoope/many.alleles.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -asA /tmp/DOjmofoope/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -asA /tmp/DOjmofoope/view.vectors.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -asB /tmp/DOjmofoope/view.vectors.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -asB /tmp/DOjmofoope/view.vectors.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -asA /tmp/DOjmofoope/view.vectors.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -asA /tmp/DOjmofoope/view.vectors.2.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -i'FMT/FGS[*:0]="AAAAAA"' /tmp/DOjmofoope/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -i'FMT/FGS[*:2]="C"' /tmp/DOjmofoope/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -i'FMT/FGS[*:4]="EE"' /tmp/DOjmofoope/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -i'FMT/FRS[*:1]="BB"' /tmp/DOjmofoope/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -i'TXT0="text"' /tmp/DOjmofoope/view.filter.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.15.1/test/view.chrs.tab /tmp/DOjmofoope/view.chrs.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.15.1/test/view.chrs.tab /tmp/DOjmofoope/view.chrs.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -i 'POS>=3062917' /tmp/DOjmofoope/filter.2.vcf.gz 1:3062917-3157410
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -i 'POS>=3062917' /tmp/DOjmofoope/filter.2.vcf.gz 1:3062917-3157410 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -r 1:10,1:12,1:10 /tmp/DOjmofoope/idx.1.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -r 1:1172777-1172804,1:1172806-1172808 /tmp/DOjmofoope/idx.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.15.1/test/idx.2.bed /tmp/DOjmofoope/idx.2.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.15.1/test/idx.3.bed /tmp/DOjmofoope/idx.3.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -R /builddir/build/BUILD/bcftools-1.15.1/test/idx.4.bed /tmp/DOjmofoope/idx.4.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -Ht 2 /tmp/DOjmofoope/view-t.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -Ht 3 /tmp/DOjmofoope/view-t.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 0 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 1 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 2 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 0 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 1 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 2 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 0 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 1 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 2 /tmp/DOjmofoope/overlap.vcf.gz 
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.1.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.1.vcf     | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.1.vcf -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.2.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.2.vcf     | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.2.vcf -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.3.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.3.vcf     | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.4.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.4.vcf     | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.4.vcf -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.5.vcf -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.5.vcf     | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_64bit:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view /builddir/build/BUILD/bcftools-1.15.1/test/view64bit.5.vcf -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -C5:nonmajor /tmp/DOjmofoope/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -c6:nonmajor /tmp/DOjmofoope/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -q0.3:major /tmp/DOjmofoope/view.minmaxac.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -i 'Gene.refGene=="RAD21L1"' /tmp/DOjmofoope/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -i 'Gene.refGene~"NOD"' /tmp/DOjmofoope/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -i 'LJB2_MutationTaster=="0.291000"' /tmp/DOjmofoope/view.filter.annovar.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -H -a /tmp/DOjmofoope/view-a.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.15.1/test/view.sites.txt /tmp/DOjmofoope/view.sites.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.15.1/test/view.sites.txt /tmp/DOjmofoope/view.sites.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version -T /builddir/build/BUILD/bcftools-1.15.1/test/view.sites.txt.gz /tmp/DOjmofoope/view.sites.vcf.gz 
.. ok

test_vcf_view:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob -T /builddir/build/BUILD/bcftools-1.15.1/test/view.sites.txt.gz /tmp/DOjmofoope/view.sites.vcf.gz  | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -h 0 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -h 1 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -h 5 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -h 22 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -h 23 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -n 0 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -n 1 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -n 5 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_head:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools head -h 5 -n 5 < /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mg0 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mg0 /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.3.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.3.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.4.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.4.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.5.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.5.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ped /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ped /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.X.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.NA19213.NA19129.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.NA19213.NA19129.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.NA19213.NA19129.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.NA19213.NA19129.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv -G /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.hwe.samples --group-samples-tag AD /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.hwe.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv -G /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.hwe.samples --group-samples-tag AD /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.hwe.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.tab.gz  /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.tab.gz  /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.2.tab.gz  /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.2.tab.gz  /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.3.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.3.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.4.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.4.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.5.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.3.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.5.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.6.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.4.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.6.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.4.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.7.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.5.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.7.tab.gz -i /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.cals.1.tab.gz  /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.cals.1.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.cals.1.tab.gz  /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.cals.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mA -C alleles -T /tmp/DOjmofoope/mpileup.cals.2.tab.gz  /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.cals.2.vcf
.. ok

test_vcf_call_cAls:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mA -C alleles -T /tmp/DOjmofoope/mpileup.cals.2.tab.gz  /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.cals.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -cv /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.c.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -cv /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.c.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ped /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ped /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -cv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.c.X.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -cv --ploidy-file /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.ploidy -S /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.2.samples /builddir/build/BUILD/bcftools-1.15.1/test/mpileup.c.X.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv /builddir/build/BUILD/bcftools-1.15.1/test/call-G.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv /builddir/build/BUILD/bcftools-1.15.1/test/call-G.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.15.1/test/call-G.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv -G - --group-samples-tag AD /builddir/build/BUILD/bcftools-1.15.1/test/call-G.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -mv -F AN_POP,AC_POP /builddir/build/BUILD/bcftools-1.15.1/test/call-G.2.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -mv -F AN_POP,AC_POP /builddir/build/BUILD/bcftools-1.15.1/test/call-G.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -m /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -m /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -m -G /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.txt /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -m -G /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.txt /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call --no-version -m -G /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.txt -a GP,GQ /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.vcf
.. ok

test_vcf_call:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools call -Ob -m -G /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.txt -a GP,GQ /builddir/build/BUILD/bcftools-1.15.1/test/call.af-fixation.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S. -e'TXT0="text"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S. -e'TXT0="text"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S. -e'FMT/FRS[*:1]="BB"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S. -e'FMT/FRS[*:1]="BB"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S. -e'FMT/FGS[*:0]="AAAAAA"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S. -e'FMT/FGS[*:0]="AAAAAA"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S. -e'FMT/FGS[*:1]="BBB"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S. -e'FMT/FGS[*:1]="BBB"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S. -e'FMT/FGS[*:4]="EE"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S. -e'FMT/FGS[*:4]="EE"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S. -e'FMT/STR="XX"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S. -e'FMT/STR="XX"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S. -e'FMT/FILTER="aaa"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.2.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S. -e'FMT/FILTER="aaa"' /builddir/build/BUILD/bcftools-1.15.1/test/view.filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -mx -g2 -G2 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -mx -g2 -G2 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'QUAL==59.2 || (INDEL=0 & (FMT/GQ=25 | FMT/DP=10))' -sModified -S. /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'QUAL==59.2 || (INDEL=0 & (FMT/GQ=25 | FMT/DP=10))' -sModified -S. /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'INFO/DP=19' /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'INFO/DP=19' /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'INFO/DP=19' -s XX /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'INFO/DP=19' -s XX /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'INFO/DP=19' -s XX -m+ /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'INFO/DP=19' -s XX -m+ /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'INFO/DP=19' -s XX -mx /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'INFO/DP=19' -s XX -mx /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'INFO/DP=19' -s XX -m+x /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'INFO/DP=19' -s XX -m+x /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'FMT/GT="0/2"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'FMT/GT="0/2"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'FMT/GT="0/2"' -s XX /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'FMT/GT="0/2"' -s XX -m+ /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+ /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'FMT/GT="0/2"' -s XX -mx /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -mx /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -e'FMT/GT="0/2"' -s XX -m+x /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+x /builddir/build/BUILD/bcftools-1.15.1/test/filter.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'FMT/GT="0/0" && AC[*]=2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'FMT/GT="0/0" && AC[*]=2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'AC[*]=2 && FMT/GT="0/0"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'AC[*]=2 && FMT/GT="0/0"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'ALT="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'ALT="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%AC[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -i 'FORMAT/TEST3<25' /builddir/build/BUILD/bcftools-1.15.1/test/filter.4.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -i 'FORMAT/TEST3<25' /builddir/build/BUILD/bcftools-1.15.1/test/filter.4.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -i 'FORMAT/TEST4<25' /builddir/build/BUILD/bcftools-1.15.1/test/filter.4.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -i 'FORMAT/TEST4<25' /builddir/build/BUILD/bcftools-1.15.1/test/filter.4.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="A"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="A"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="RR"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="RR"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="RA"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="RA"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="AR"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="AR"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="AA"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="AA"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="aA"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="aA"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="Aa"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="Aa"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="HOM"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="HOM"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="HET"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="HET"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'GT="HAP"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'GT="HAP"' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%GT]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'AD[:1]=11' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'AD[:1]=11' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'AD[1:]=11' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'AD[1:]=11' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'FR[0:1]=11' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%FR]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'FR[0:1]=11' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%FR]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'AD[*]="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'AD[*]="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'AD[0:0]=="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'AD[0:0]=="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'AD[0:0]!="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'AD[0:0]!="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS[\t%AD]\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'QUAL=="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%QUAL\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'QUAL=="."' /builddir/build/BUILD/bcftools-1.15.1/test/filter.5.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\t%QUAL\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'N_PASS(DP>32)=1' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'N_PASS(DP>32)=1' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'F_PASS(DP>32)=0.5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'F_PASS(DP>32)=0.5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '[%POS\t%SAMPLE\t%DP\n]'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'F_MISSING>=1/5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'F_MISSING>=1/5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'F_MISSING>=0.2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'F_MISSING>=0.2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'F_PASS(GT=="mis")>=1/5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'F_PASS(GT=="mis")>=1/5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i'F_PASS(GT=="mis")>=0.2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i'F_PASS(GT=="mis")>=0.2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.6.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%POS\n'
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -mx -s + -g2:mnp,indel,other /builddir/build/BUILD/bcftools-1.15.1/test/filter.7.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -mx -s + -g2:mnp,indel,other /builddir/build/BUILD/bcftools-1.15.1/test/filter.7.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'FORMAT/AO==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'FORMAT/AO==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'MAX(FORMAT/AO[0:])==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'MAX(FORMAT/AO[0:])==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'MIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'MIN(FORMAT/AO[0:])==3' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'AVG(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'AVG(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'MEDIAN(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'MEDIAN(FORMAT/AO[2:])==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'STDEV(FORMAT/AO[0:])=0.5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'STDEV(FORMAT/AO[0:])=0.5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'SUM(FORMAT/AO[0:])=7' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'SUM(FORMAT/AO[0:])=7' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'SMPL_MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'SMPL_MAX(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'sMIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'sMIN(FORMAT/AO)==2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'ABS(sAVG(FORMAT/AO)-3.66666)<1e-5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'ABS(sAVG(FORMAT/AO)-3.66666)<1e-5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'sMEDIAN(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'sMEDIAN(FORMAT/AO)==4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'ABS(sSTDEV(FORMAT/AO)-1.2472191)<1e-5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'ABS(sSTDEV(FORMAT/AO)-1.2472191)<1e-5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'sSUM(FORMAT/AO)==11' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'sSUM(FORMAT/AO)==11' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i 'QUAL/FMT/AD==55' /builddir/build/BUILD/bcftools-1.15.1/test/filter.9.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i 'QUAL/FMT/AD==55' /builddir/build/BUILD/bcftools-1.15.1/test/filter.9.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i 'QUAL/INFO/AD==10' /builddir/build/BUILD/bcftools-1.15.1/test/filter.9.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i 'QUAL/INFO/AD==10' /builddir/build/BUILD/bcftools-1.15.1/test/filter.9.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'ABS(SMPL_MAX(FORMAT/AO))=5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'ABS(SMPL_MAX(FORMAT/AO))=5' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'PHRED(AO[1:])>-4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'PHRED(AO[1:])>-4' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -S . -e 'ABS(AO[1:])==2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -S . -e 'ABS(AO[1:])==2' /builddir/build/BUILD/bcftools-1.15.1/test/filter.8.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i 'sum(AD[*]) > FORMAT/DP' /builddir/build/BUILD/bcftools-1.15.1/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i 'sum(AD[*]) > FORMAT/DP' /builddir/build/BUILD/bcftools-1.15.1/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i 'FORMAT/DP < sum(AD[*])' /builddir/build/BUILD/bcftools-1.15.1/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i 'FORMAT/DP < sum(AD[*])' /builddir/build/BUILD/bcftools-1.15.1/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i 'sum(AD[*]) < FORMAT/DP' /builddir/build/BUILD/bcftools-1.15.1/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i 'sum(AD[*]) < FORMAT/DP' /builddir/build/BUILD/bcftools-1.15.1/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -i 'FORMAT/DP > sum(AD[*])' /builddir/build/BUILD/bcftools-1.15.1/test/filter.10.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob -i 'FORMAT/DP > sum(AD[*])' /builddir/build/BUILD/bcftools-1.15.1/test/filter.10.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 0 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 0 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 1 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 1 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter --soft-filter xxx --mask 2:1005-1008 --mask-overlap 2 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob --soft-filter xxx --mask 2:1005-1008 --mask-overlap 2 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter --soft-filter xxx --mask ^2:1005-1008 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | grep -v ^##bcftools_
.. ok

test_vcf_filter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools filter -Ob --soft-filter xxx --mask ^2:1005-1008 /builddir/build/BUILD/bcftools-1.15.1/test/filter.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools sort -m 0 /builddir/build/BUILD/bcftools-1.15.1/test/sort.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools sort -Ob -m 0 /builddir/build/BUILD/bcftools-1.15.1/test/sort.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools sort -m 1000 /builddir/build/BUILD/bcftools-1.15.1/test/sort.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_sort:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools sort -Ob -m 1000 /builddir/build/BUILD/bcftools-1.15.1/test/sort.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f '%CHROM\t%POS\t%REF,%ALT\n'
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /builddir/build/BUILD/bcftools-1.15.1/test/regions.tab /tmp/DOjmofoope/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /builddir/build/BUILD/bcftools-1.15.1/test/regions.tab
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /builddir/build/BUILD/bcftools-1.15.1/test/regions.tab /tmp/DOjmofoope/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/DOjmofoope/regions.tab.gz /tmp/DOjmofoope/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/DOjmofoope/regions.tab.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/DOjmofoope/regions.tab.gz /tmp/DOjmofoope/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/DOjmofoope/regions.bed /tmp/DOjmofoope/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/DOjmofoope/regions.bed
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/DOjmofoope/regions.bed /tmp/DOjmofoope/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/DOjmofoope/regions.bed.gz /tmp/DOjmofoope/regions.vcf.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/regions.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/DOjmofoope/regions.bed.gz
.. ok

test_vcf_regions:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/DOjmofoope/regions.bed.gz /tmp/DOjmofoope/regions.vcf.gz
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /builddir/build/BUILD/bcftools-1.15.1/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /builddir/build/BUILD/bcftools-1.15.1/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate.hdr -c CHROM,POS,-,T_STR /builddir/build/BUILD/bcftools-1.15.1/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate.hdr -c CHROM,POS,-,T_STR /builddir/build/BUILD/bcftools-1.15.1/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate.hdr -c CHROM,FROM,TO,T_STR /builddir/build/BUILD/bcftools-1.15.1/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate2.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate.hdr -c CHROM,FROM,TO,T_STR /builddir/build/BUILD/bcftools-1.15.1/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/DOjmofoope/annotate.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots.vcf.gz  -c STR,ID,QUAL,FILTER /tmp/DOjmofoope/annotate.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,FILTER,INFO,FMT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate   -x ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL /builddir/build/BUILD/bcftools-1.15.1/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob   -x ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL /builddir/build/BUILD/bcftools-1.15.1/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate   -x FORMAT /builddir/build/BUILD/bcftools-1.15.1/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob   -x FORMAT /builddir/build/BUILD/bcftools-1.15.1/test/annotate3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots4.vcf.gz  -c +INFO /tmp/DOjmofoope/annotate4.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots4.vcf.gz  -c +INFO /tmp/DOjmofoope/annotate4.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots4.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /builddir/build/BUILD/bcftools-1.15.1/test/annotate4.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots4.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /builddir/build/BUILD/bcftools-1.15.1/test/annotate4.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots10.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /builddir/build/BUILD/bcftools-1.15.1/test/annotate10.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots10.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /builddir/build/BUILD/bcftools-1.15.1/test/annotate10.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots11.tab.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /builddir/build/BUILD/bcftools-1.15.1/test/annotate2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots11.tab.gz  -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /builddir/build/BUILD/bcftools-1.15.1/test/annotate2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -x INFO -c INFO/IINT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots11.vcf.gz  -c FMT /tmp/DOjmofoope/annotate11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots11.vcf.gz  -c FMT /tmp/DOjmofoope/annotate11.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots2.vcf.gz  -c FMT/newGT:=GT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots12.vcf.gz  -c FMT/GT:=newGT /tmp/DOjmofoope/annotate2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.hdr -c CHROM,BEG,END,ABC /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.hdr -c CHROM,BEG,END,ABC /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots13.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /builddir/build/BUILD/bcftools-1.15.1/test/annotate13.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate   -x FILTER/XX,INFO/XX --force /builddir/build/BUILD/bcftools-1.15.1/test/annotate14.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob   -x FILTER/XX,INFO/XX --force /builddir/build/BUILD/bcftools-1.15.1/test/annotate14.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.15.1/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.15.1/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.15.1/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate15.tab.gz -h /builddir/build/BUILD/bcftools-1.15.1/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /builddir/build/BUILD/bcftools-1.15.1/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/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-1.15.1/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/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-1.15.1/test/annotate15.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate   -x FILTER /builddir/build/BUILD/bcftools-1.15.1/test/annotate16.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob   -x FILTER /builddir/build/BUILD/bcftools-1.15.1/test/annotate16.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate17.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate17.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate17.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate17.1.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate17.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate17.3.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate17.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate17.3.tab.gz  -c CHROM,BEG,END,A,B -l A:append,B:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate17.3.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/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-1.15.1/test/annotate18.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/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-1.15.1/test/annotate18.1.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/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-1.15.1/test/annotate18.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/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-1.15.1/test/annotate18.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/DOjmofoope/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate19.src.vcf.gz  -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/DOjmofoope/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/DOjmofoope/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate19.src.vcf.gz  -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/DOjmofoope/annotate19.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate20.src.vcf.gz  -c  FMT/GT /tmp/DOjmofoope/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate20.src.vcf.gz  -c  FMT/GT /tmp/DOjmofoope/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate20.src.vcf.gz  -c +FMT/GT /tmp/DOjmofoope/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate20.src.vcf.gz  -c +FMT/GT /tmp/DOjmofoope/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate20.src.vcf.gz  -c -FMT/GT /tmp/DOjmofoope/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate20.src.vcf.gz  -c -FMT/GT /tmp/DOjmofoope/annotate20.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate.multi.tab.gz  -c CHROM,POS,REF,ALT,ANN -l ANN:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate.multi.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate.multi.tab.gz  -c CHROM,POS,REF,ALT,ANN -l ANN:append /builddir/build/BUILD/bcftools-1.15.1/test/annotate.multi.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/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-1.15.1/test/annotate.missing-append.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/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-1.15.1/test/annotate.missing-append.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots9.tab.gz  -c CHROM,POS,REF,ALT,+ID /builddir/build/BUILD/bcftools-1.15.1/test/annotate9.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots9.tab.gz  -c CHROM,POS,REF,ALT,+ID /builddir/build/BUILD/bcftools-1.15.1/test/annotate9.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate   --rename-annots /builddir/build/BUILD/bcftools-1.15.1/test/annotate21.txt /builddir/build/BUILD/bcftools-1.15.1/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob   --rename-annots /builddir/build/BUILD/bcftools-1.15.1/test/annotate21.txt /builddir/build/BUILD/bcftools-1.15.1/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/test/annotate21.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/DOjmofoope/annotate22.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate22.vcf.gz  -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/DOjmofoope/annotate22.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate23.tab.gz  -c CHROM,POS,~ID,REF,ALT,INFO/END /builddir/build/BUILD/bcftools-1.15.1/test/annotate23.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate23.tab.gz  -c CHROM,POS,~ID,REF,ALT,INFO/END /builddir/build/BUILD/bcftools-1.15.1/test/annotate23.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate24.src.vcf.gz  -c XX /tmp/DOjmofoope/annotate24.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate24.src.vcf.gz  -c XX /tmp/DOjmofoope/annotate24.dst.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate25.tab.gz  -c CHROM,POS,ID,REF,ALT,~INFO/END /builddir/build/BUILD/bcftools-1.15.1/test/annotate25.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate25.tab.gz  -c CHROM,POS,ID,REF,ALT,~INFO/END /builddir/build/BUILD/bcftools-1.15.1/test/annotate25.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate26.tab.gz  -c CHROM,POS,~POS /builddir/build/BUILD/bcftools-1.15.1/test/annotate26.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate26.tab.gz  -c CHROM,POS,~POS /builddir/build/BUILD/bcftools-1.15.1/test/annotate26.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annotate.missing.tab.gz  -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /builddir/build/BUILD/bcftools-1.15.1/test/annotate.missing.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique /builddir/build/BUILD/bcftools-1.15.1/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique /builddir/build/BUILD/bcftools-1.15.1/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 /builddir/build/BUILD/bcftools-1.15.1/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots.olap.tab.gz  -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 /builddir/build/BUILD/bcftools-1.15.1/test/annotate.olap.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots.id.vcf.gz  -c ALT /tmp/DOjmofoope/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots.id.vcf.gz  -c ALT /tmp/DOjmofoope/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -a /tmp/DOjmofoope/annots.id.vcf.gz  -c +ALT /tmp/DOjmofoope/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_annotate:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate -Ob -a /tmp/DOjmofoope/annots.id.vcf.gz  -c +ALT /tmp/DOjmofoope/annotate.id.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +check-ploidy --no-version /tmp/DOjmofoope/checkploidy.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +check-ploidy --no-version /tmp/DOjmofoope/checkploidy.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +check-ploidy --no-version /tmp/DOjmofoope/checkploidy.2.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +check-ploidy --no-version /tmp/DOjmofoope/checkploidy.2.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +check-ploidy --no-version /tmp/DOjmofoope/checkploidy.2.vcf.gz -- -m | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +check-ploidy --no-version /tmp/DOjmofoope/checkploidy.2.bcf -- -m | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +missing2ref --no-version /tmp/DOjmofoope/plugin1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +missing2ref --no-version /tmp/DOjmofoope/plugin1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/plugin1.vcf.gz -- -t . -n 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/plugin1.bcf -- -t . -n 0 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.vcf.gz -- -t q -n 0 -i 'GT~"." && FMT/DP=30 && GQ=150' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.bcf -- -t q -n 0 -i 'GT~"." && FMT/DP=30 && GQ=150' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.2.vcf.gz -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.15.1/test/setGT.samples.txt]="het"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.2.bcf -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.15.1/test/setGT.samples.txt]="het"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.2.vcf.gz -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.15.1/test/setGT.samples.txt]="het" & binom(AD[@/builddir/build/BUILD/bcftools-1.15.1/test/setGT.samples.txt])<0.1' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.2.bcf -- -t q -n . -i 'GT[@/builddir/build/BUILD/bcftools-1.15.1/test/setGT.samples.txt]="het" & binom(AD[@/builddir/build/BUILD/bcftools-1.15.1/test/setGT.samples.txt])<0.1' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.vcf.gz -- -t a -n pM | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.bcf -- -t a -n pM | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.vcf.gz -- -t a -n pm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.bcf -- -t a -n pm | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.vcf.gz -- -t a -n c:1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.bcf -- -t a -n c:1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.vcf.gz -- -t a -n c:"1|1" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.bcf -- -t a -n c:"1|1" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.vcf.gz -- -t a -n c:"m|M" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.bcf -- -t a -n c:"m|M" | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.vcf.gz -- -t a -n c:0/1/1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.3.bcf -- -t a -n c:0/1/1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.4.vcf.gz -- -t q -n . -e 'FMT/DP>90' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.4.bcf -- -t q -n . -e 'FMT/DP>90' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.4.vcf.gz -- -t q -n . -e 'FMT/DP>100' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +setGT --no-version /tmp/DOjmofoope/setGT.4.bcf -- -t q -n . -e 'FMT/DP>100' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-AN-AC --no-version /tmp/DOjmofoope/plugin1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-AN-AC --no-version /tmp/DOjmofoope/plugin1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +dosage /tmp/DOjmofoope/dosage.vcf.gz -- -t PL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +dosage /tmp/DOjmofoope/dosage.bcf -- -t PL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +dosage /tmp/DOjmofoope/dosage.vcf.gz -- -t GL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +dosage /tmp/DOjmofoope/dosage.bcf -- -t GL | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +dosage /tmp/DOjmofoope/dosage.vcf.gz -- -t GT | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +dosage /tmp/DOjmofoope/dosage.bcf -- -t GT | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixploidy --no-version /tmp/DOjmofoope/fixploidy.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.15.1/test/fixploidy.samples -p /builddir/build/BUILD/bcftools-1.15.1/test/fixploidy.ploidy | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixploidy --no-version /tmp/DOjmofoope/fixploidy.bcf -- -s /builddir/build/BUILD/bcftools-1.15.1/test/fixploidy.samples -p /builddir/build/BUILD/bcftools-1.15.1/test/fixploidy.ploidy | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +guess-ploidy /tmp/DOjmofoope/view.PL.vcf.gz -vrX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +guess-ploidy /tmp/DOjmofoope/view.PL.bcf -vrX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +guess-ploidy /tmp/DOjmofoope/view.GL.vcf.gz -vrX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +guess-ploidy /tmp/DOjmofoope/view.GL.bcf -vrX | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +tag2tag --no-version /tmp/DOjmofoope/view.GL.vcf.gz -- -r --gl-to-pl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +tag2tag --no-version /tmp/DOjmofoope/view.GL.bcf -- -r --gl-to-pl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +tag2tag --no-version /tmp/DOjmofoope/view.GP.vcf.gz -- -r --gp-to-gt -t 0.2 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +tag2tag --no-version /tmp/DOjmofoope/view.GP.bcf -- -r --gp-to-gt -t 0.2 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +add-variantkey /tmp/DOjmofoope/query.variantkey.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +add-variantkey /tmp/DOjmofoope/query.variantkey.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +variantkey-hex /tmp/DOjmofoope/query.variantkey.vcf.gz test/ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +variantkey-hex /tmp/DOjmofoope/query.variantkey.bcf test/ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +allele-length /tmp/DOjmofoope/query.nucleotide.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +allele-length /tmp/DOjmofoope/query.nucleotide.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/merge.a.vcf.gz -- -t AN,AC,AC_Hom,AC_Het,AC_Hemi | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/merge.a.bcf -- -t AN,AC,AC_Hom,AC_Het,AC_Hemi | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/view.vcf.gz -- -t AC,AN,AF,MAF,NS | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/view.bcf -- -t AC,AN,AF,MAF,NS | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/view.vcf.gz -- -t AC -S /builddir/build/BUILD/bcftools-1.15.1/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/view.bcf -- -t AC -S /builddir/build/BUILD/bcftools-1.15.1/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/view.vcf.gz -- -t "DP:1=int(sum(FORMAT/DP))" -S /builddir/build/BUILD/bcftools-1.15.1/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/view.bcf -- -t "DP:1=int(sum(FORMAT/DP))" -S /builddir/build/BUILD/bcftools-1.15.1/test/fill-tags.3.smpl | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/many-alts.vcf.gz -- -t AN,AC | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/many-alts.bcf -- -t AN,AC | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-hemi.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-hemi.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-hemi.vcf.gz -- -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-hemi.bcf -- -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-hwe.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-hwe.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-hwe.vcf.gz -- -t 'XX:1=F_PASS(GT="alt")' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-hwe.bcf -- -t 'XX:1=F_PASS(GT="alt")' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-AN0.vcf.gz -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-AN0.bcf -- -t all,END,TYPE,F_MISSING | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-VAF.vcf.gz -- -t VAF,VAF1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-VAF.bcf -- -t VAF,VAF1 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-AD.vcf.gz -- -t 'INFO/DP:1=int(sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-AD.bcf -- -t 'INFO/DP:1=int(sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-AD.vcf.gz -- -t 'INFO/DP:1=int(sum(INFO/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-AD.bcf -- -t 'INFO/DP:1=int(sum(INFO/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-AD.vcf.gz -- -t 'FORMAT/DP:1=int(smpl_sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/fill-tags-AD.bcf -- -t 'FORMAT/DP:1=int(smpl_sum(FMT/AD))' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-tags --no-version /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.vcf.gz  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.bcf  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.vcf.gz -- -H | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.bcf -- -H | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.vcf.gz -- -Hm | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.bcf -- -Hm | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.vcf.gz -- -Hmv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.bcf -- -Hmv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.vcf.gz -- -Hv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.bcf -- -Hv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.vcf.gz -- -m | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.bcf -- -m | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.vcf.gz -- -mv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.bcf -- -mv | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.vcf.gz -- -v | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTisec /tmp/DOjmofoope/view.bcf -- -v | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-switch-rate /tmp/DOjmofoope/trio.vcf.gz -- -p /builddir/build/BUILD/bcftools-1.15.1/test/trio.ped | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-switch-rate /tmp/DOjmofoope/trio.bcf -- -p /builddir/build/BUILD/bcftools-1.15.1/test/trio.ped | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-stats /tmp/DOjmofoope/trio-stats.vcf.gz -a 1 -p /builddir/build/BUILD/bcftools-1.15.1/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-stats /tmp/DOjmofoope/trio-stats.bcf -a 1 -p /builddir/build/BUILD/bcftools-1.15.1/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-stats /tmp/DOjmofoope/trio-stats.vcf.gz -p /builddir/build/BUILD/bcftools-1.15.1/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-stats /tmp/DOjmofoope/trio-stats.bcf -p /builddir/build/BUILD/bcftools-1.15.1/test/trio-stats.ped -d mendel-errors,transmitted | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +smpl-stats /tmp/DOjmofoope/indel-stats.vcf.gz | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +smpl-stats /tmp/DOjmofoope/indel-stats.bcf | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +indel-stats /tmp/DOjmofoope/indel-stats.vcf.gz | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +indel-stats /tmp/DOjmofoope/indel-stats.bcf | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +indel-stats /tmp/DOjmofoope/indel-stats.vcf.gz  -p /builddir/build/BUILD/bcftools-1.15.1/test/trio-stats.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +indel-stats /tmp/DOjmofoope/indel-stats.bcf  -p /builddir/build/BUILD/bcftools-1.15.1/test/trio-stats.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +indel-stats /tmp/DOjmofoope/indel-stats.vcf.gz  -p /builddir/build/BUILD/bcftools-1.15.1/test/trio-stats.2.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +indel-stats /tmp/DOjmofoope/indel-stats.bcf  -p /builddir/build/BUILD/bcftools-1.15.1/test/trio-stats.2.ped | grep -v ^CMD | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +ad-bias /tmp/DOjmofoope/ad-bias.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.15.1/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +ad-bias /tmp/DOjmofoope/ad-bias.bcf -- -s /builddir/build/BUILD/bcftools-1.15.1/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +ad-bias /tmp/DOjmofoope/ad-bias.2.vcf.gz -- -s /builddir/build/BUILD/bcftools-1.15.1/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +ad-bias /tmp/DOjmofoope/ad-bias.2.bcf -- -s /builddir/build/BUILD/bcftools-1.15.1/test/ad-bias.samples | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +ad-bias /tmp/DOjmofoope/ad-bias.vcf.gz --no-version -- -s /builddir/build/BUILD/bcftools-1.15.1/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +ad-bias /tmp/DOjmofoope/ad-bias.bcf --no-version -- -s /builddir/build/BUILD/bcftools-1.15.1/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +ad-bias /tmp/DOjmofoope/ad-bias.2.vcf.gz --no-version -- -s /builddir/build/BUILD/bcftools-1.15.1/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +ad-bias /tmp/DOjmofoope/ad-bias.2.bcf --no-version -- -s /builddir/build/BUILD/bcftools-1.15.1/test/ad-bias.samples -c | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +af-dist /tmp/DOjmofoope/af-dist.vcf.gz  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +af-dist /tmp/DOjmofoope/af-dist.bcf  | grep -v bcftools | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -i /tmp/DOjmofoope/fixref.2b.vcf.gz | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -i /tmp/DOjmofoope/fixref.2b.vcf.gz | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.3.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.15.1/test/fixref.3.fa -m top | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.3.bcf -- -f /builddir/build/BUILD/bcftools-1.15.1/test/fixref.3.fa -m top | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -m ref-alt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -m ref-alt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -m flip | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -m flip | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.2a.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -m flip-all | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fixref /tmp/DOjmofoope/fixref.2a.bcf -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -m flip-all | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-from-fasta /tmp/DOjmofoope/aa.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.15.1/test/aa.fa -c AA -h /builddir/build/BUILD/bcftools-1.15.1/test/aa.hdr -i 'TYPE="snp"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-from-fasta /tmp/DOjmofoope/aa.bcf -- -f /builddir/build/BUILD/bcftools-1.15.1/test/aa.fa -c AA -h /builddir/build/BUILD/bcftools-1.15.1/test/aa.hdr -i 'TYPE="snp"' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-from-fasta /tmp/DOjmofoope/aa.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.15.1/test/aa.fa -c REF -N | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-from-fasta /tmp/DOjmofoope/aa.bcf -- -f /builddir/build/BUILD/bcftools-1.15.1/test/aa.fa -c REF -N | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-from-fasta /tmp/DOjmofoope/ref.vcf.gz -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -c REF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +fill-from-fasta /tmp/DOjmofoope/ref.bcf -- -f /builddir/build/BUILD/bcftools-1.15.1/test/norm.fa -c REF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTsubset --no-version /tmp/DOjmofoope/view.vcf.gz -- -s NA00001 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTsubset --no-version /tmp/DOjmofoope/view.bcf -- -s NA00001 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTsubset --no-version /tmp/DOjmofoope/view.vcf.gz -- -s NA00001,NA00002 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTsubset --no-version /tmp/DOjmofoope/view.bcf -- -s NA00001,NA00002 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTsubset --no-version /tmp/DOjmofoope/view.vcf.gz -- -s NA00001,NA00002,NA00003 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +GTsubset --no-version /tmp/DOjmofoope/view.bcf -- -s NA00001,NA00002,NA00003 | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.vcf.gz -t mom1,dad1,child1 -md | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.bcf -t mom1,dad1,child1 -md | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.vcf.gz -t mom1,dad1,child1 -m+ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.bcf -t mom1,dad1,child1 -m+ | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.vcf.gz -t mom1,dad1,child1 -mx | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.bcf -t mom1,dad1,child1 -mx | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.vcf.gz -t mom1,dad1,child1 -ma | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.bcf -t mom1,dad1,child1 -ma | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.vcf.gz -t mom1,dad1,child1 -mu | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +mendelian /tmp/DOjmofoope/mendelian.bcf -t mom1,dad1,child1 -mu | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.vcf.gz -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 a,b -1 c | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.bcf -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 a,b -1 c | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.vcf.gz -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 /builddir/build/BUILD/bcftools-1.15.1/test/contrast0.txt -1 /builddir/build/BUILD/bcftools-1.15.1/test/contrast1.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.bcf -a PASSOC,FASSOC,NOVELAL,NOVELGT -0 /builddir/build/BUILD/bcftools-1.15.1/test/contrast0.txt -1 /builddir/build/BUILD/bcftools-1.15.1/test/contrast1.txt | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.vcf.gz -a NASSOC -0 a,b,c -1 d --force-samples | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.bcf -a NASSOC -0 a,b,c -1 d --force-samples | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.1.vcf.gz -a NOVELAL,NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.1.bcf -a NOVELAL,NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.1.vcf.gz -a NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +contrast /tmp/DOjmofoope/contrast.1.bcf -a NOVELGT -0 A -1 B | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.1.vcf.gz -p proband,father,mother --ppl --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.1.bcf -p proband,father,mother --ppl --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.2.vcf.gz -p proband,father,mother --ppl --dnm-tag DNM:log --force-AD | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.2.bcf -p proband,father,mother --ppl --dnm-tag DNM:log --force-AD | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother --use-DNG | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.4.bcf -p proband,father,mother --use-DNG | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother           | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.4.bcf -p proband,father,mother           | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.4.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.4.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.4.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.5.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.5.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.5.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.5.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.6.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.6.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.6.vcf.gz -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\t[\t%VA]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.6.bcf -p proband,father,mother           --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\t[\t%VA]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.7.vcf.gz -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.7.bcf -p proband,father,mother --use-DNG --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.7.vcf.gz -p proband,father,mother        --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.7.bcf -p proband,father,mother        --dnm-tag DNM:log | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.8.vcf.gz -p proband,father,mother  | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.8.bcf -p proband,father,mother  | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\t[\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.9.vcf.gz -p 1X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.9.bcf -p 1X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.9.vcf.gz -p 2X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.9.bcf -p 2X:proband,father,mother --use-NAIVE | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.10.vcf.gz -p proband,father,mother --with-pAD | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM][\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +trio-dnm2 /tmp/DOjmofoope/trio-dnm/trio-dnm.10.bcf -p proband,father,mother --with-pAD | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[\t%DNM][\t%VAF]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +gvcfz /tmp/DOjmofoope/gvcfz.vcf.gz -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.15.1/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +gvcfz /tmp/DOjmofoope/gvcfz.bcf -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.15.1/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +gvcfz /tmp/DOjmofoope/gvcfz.vcf.gz -g 'PASS:GQ>10; FLT:-' -a | /builddir/build/BUILD/bcftools-1.15.1/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +gvcfz /tmp/DOjmofoope/gvcfz.bcf -g 'PASS:GQ>10; FLT:-' -a | /builddir/build/BUILD/bcftools-1.15.1/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +gvcfz /tmp/DOjmofoope/gvcfz.2.vcf.gz -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +gvcfz /tmp/DOjmofoope/gvcfz.2.bcf -g 'PASS:GT!="alt"' -a | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%FILTER\t%END[\t%GT][\t%DP]\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +remove-overlaps /tmp/DOjmofoope/remove-overlaps.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +remove-overlaps /tmp/DOjmofoope/remove-overlaps.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +remove-overlaps /tmp/DOjmofoope/remove-overlaps.vcf.gz -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +remove-overlaps /tmp/DOjmofoope/remove-overlaps.bcf -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -c Consequence -s worst:missense+ | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%Consequence\n' -i'Consequence!="."' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -s worst:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -s worst:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -s primary:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -s primary:missense+ -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -s primary:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -s primary:missense+ -f'%POS\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.2.vcf.gz -s worst -f'%POS\t%AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.2.bcf -s worst -f'%POS\t%AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.2.vcf.gz -s worst -f'%POS\t%INFO/AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.2.bcf -s worst -f'%POS\t%INFO/AF\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.3.vcf.gz -s worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.3.bcf -s worst -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -t 1:14464 -f '%POS\t%CANONICAL\t%Consequence\n' -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -t 1:14464 -f '%POS\t%CSQ\n' -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.4.vcf.gz -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.4.bcf -f '%POS\t%BCSQ\n' -a BCSQ -A tab -d | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -c gnomAD_NFE_AF:real,ALLELE_NUM:int | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -c gnomAD_NFE_AF:real,ALLELE_NUM:int | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.vcf.gz -c gnomAD_NFE_AF,ALLELE_NUM          | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.bcf -c gnomAD_NFE_AF,ALLELE_NUM          | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%gnomAD_NFE_AF\t%ALLELE_NUM\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.5.vcf.gz -s :synonymous    -c Consequence | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.5.bcf -s :synonymous    -c Consequence | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.5.vcf.gz -s :synonymous -x -c Consequence | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.5.bcf -s :synonymous -x -c Consequence | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%Consequence\n' | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.6.vcf.gz -c SAS_AF | grep ID=SAS_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.6.bcf -c SAS_AF | grep ID=SAS_AF | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.6.vcf.gz -c - | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.6.bcf -c - | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.6.vcf.gz -c - -s worst | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.6.bcf -c - -s worst | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.7.vcf.gz --annotation 'ANN' -c IMPACT -i 'INFO/IMPACT[*] ~ "MODIFIER"' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.7.bcf --annotation 'ANN' -c IMPACT -i 'INFO/IMPACT[*] ~ "MODIFIER"' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.8.vcf.gz -a BCSQ -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.8.bcf -a BCSQ -s worst -c Consequence,amino_acid_change,BCSQ | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.9.vcf.gz -a BCSQ -f '%xPOS %xConsequence\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.9.bcf -a BCSQ -f '%xPOS %xConsequence\n' -p x | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.10.vcf.gz -a CSQ -f '%M_CAP_pred %M_CAP_score\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/split-vep.10.bcf -a CSQ -f '%M_CAP_pred %M_CAP_score\n' | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split-vep /tmp/DOjmofoope/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:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.vcf.gz -r 20:100 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.bcf -r 20:100 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.vcf.gz -r 20:101 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.bcf -r 20:101 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.vcf.gz -r 20:102 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.bcf -r 20:102 -p proband,father,mother -t del | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.vcf.gz -r 20:103 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.bcf -r 20:103 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.vcf.gz -r 20:104 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +parental-origin /tmp/DOjmofoope/parental-origin.bcf -r 20:104 -p proband,father,mother -t dup | grep -v ^# | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 1 -a r2,LD,HD /tmp/DOjmofoope/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 1 -a r2,LD,HD /tmp/DOjmofoope/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 1 -a r2,LD,HD /tmp/DOjmofoope/prune.2.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 1 -a r2,LD,HD /tmp/DOjmofoope/prune.2.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2 -a r2 -m 0.5 -f MaxR2 /tmp/DOjmofoope/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2 -a r2 -m 0.5 -f MaxR2 /tmp/DOjmofoope/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2 -a r2 -m 0.5  /tmp/DOjmofoope/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2 -a r2 -m 0.5  /tmp/DOjmofoope/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2bp -n 1 --AF-tag AF /tmp/DOjmofoope/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2bp -n 1 --AF-tag AF /tmp/DOjmofoope/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2bp -n 1 --AF-tag AF -i 'GT="alt"' /tmp/DOjmofoope/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2bp -n 1 --AF-tag AF -i 'GT="alt"' /tmp/DOjmofoope/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2bp -n 1 -N 1st /tmp/DOjmofoope/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2bp -n 1 -N 1st /tmp/DOjmofoope/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2bp -n 1 -N rand --random-seed 1 /tmp/DOjmofoope/prune.1.vcf.gz  | grep -v ^##bcftools_
.. ok

test_vcf_plugin:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +prune -w 2bp -n 1 -N rand --random-seed 1 /tmp/DOjmofoope/prune.1.bcf  | grep -v ^##bcftools_
.. ok

test_plugin_split:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split /builddir/build/BUILD/bcftools-1.15.1/test/split.1.vcf -o /tmp/DOjmofoope/split.1.1   && cd /tmp/DOjmofoope/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-1.15.1/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H $f; done
.. ok

test_plugin_split:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split /builddir/build/BUILD/bcftools-1.15.1/test/split.1.vcf -o /tmp/DOjmofoope/split.1.2 -S /builddir/build/BUILD/bcftools-1.15.1/test/split.smpl.1.2.txt  && cd /tmp/DOjmofoope/split.1.2  && for f in A.vcf B.vcf C.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H $f; done
.. ok

test_plugin_split:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split /builddir/build/BUILD/bcftools-1.15.1/test/split.1.vcf -o /tmp/DOjmofoope/split.1.3 -S /builddir/build/BUILD/bcftools-1.15.1/test/split.smpl.1.3.txt  && cd /tmp/DOjmofoope/split.1.3  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H $f; done
.. ok

test_plugin_split:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split /builddir/build/BUILD/bcftools-1.15.1/test/split.1.vcf -o /tmp/DOjmofoope/split.1.4 -S /builddir/build/BUILD/bcftools-1.15.1/test/split.smpl.1.3.txt -i 'GT[0]="alt"'  && cd /tmp/DOjmofoope/split.1.4  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H $f; done
.. ok

test_plugin_split:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split /builddir/build/BUILD/bcftools-1.15.1/test/split.1.vcf -o /tmp/DOjmofoope/split.1.5 -S /builddir/build/BUILD/bcftools-1.15.1/test/split.smpl.1.3.txt -i 'GT="alt"'  && cd /tmp/DOjmofoope/split.1.5  && for f in a3.vcf b2.vcf c.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H $f; done
.. ok

test_plugin_split:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split /builddir/build/BUILD/bcftools-1.15.1/test/split.1.vcf -o /tmp/DOjmofoope/split.1.6 -S /builddir/build/BUILD/bcftools-1.15.1/test/split.smpl.1.4.txt -i 'GT="alt"'  && cd /tmp/DOjmofoope/split.1.6  && for f in file1.vcf file2.vcf file3.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H $f; done
.. ok

test_plugin_split:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split /builddir/build/BUILD/bcftools-1.15.1/test/split.1.vcf -o /tmp/DOjmofoope/split.1.7 -G /builddir/build/BUILD/bcftools-1.15.1/test/split.grp.1.1.txt  && cd /tmp/DOjmofoope/split.1.7  && for f in A.vcf A1.vcf A2.vcf B.vcf; do echo $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H $f; done
.. ok

test_plugin_split:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +split /builddir/build/BUILD/bcftools-1.15.1/test/split.2.vcf -o /tmp/DOjmofoope/split.2.1   && cd /tmp/DOjmofoope/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-1.15.1/bcftools query -l $f; /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H $f; done
.. ok

test_plugin_scatter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +scatter /builddir/build/BUILD/bcftools-1.15.1/test/scatter.1.vcf -o /tmp/DOjmofoope/scatter.1.1 -n 3 && cd /tmp/DOjmofoope/scatter.1.1 && cat 0.vcf 1.vcf 2.vcf | grep -v ^##
.. ok

test_plugin_scatter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +scatter /builddir/build/BUILD/bcftools-1.15.1/test/scatter.1.vcf -o /tmp/DOjmofoope/scatter.1.2 -s 21,22 && cd /tmp/DOjmofoope/scatter.1.2 && cat 21.vcf 22.vcf | grep -v ^##
.. ok

test_plugin_scatter:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools +scatter /builddir/build/BUILD/bcftools-1.15.1/test/scatter.1.vcf -o /tmp/DOjmofoope/scatter.1.3 -s 21,22 -x X && cd /tmp/DOjmofoope/scatter.1.3 && cat 21.vcf 22.vcf X.vcf | grep -v ^##
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version   /tmp/DOjmofoope/concat.1.a.vcf.gz /tmp/DOjmofoope/concat.1.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob   /tmp/DOjmofoope/concat.1.a.vcf.gz /tmp/DOjmofoope/concat.1.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version   /tmp/DOjmofoope/concat.1.a.bcf /tmp/DOjmofoope/concat.1.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob   /tmp/DOjmofoope/concat.1.a.bcf /tmp/DOjmofoope/concat.1.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -a  /tmp/DOjmofoope/concat.2.a.vcf.gz /tmp/DOjmofoope/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -a  /tmp/DOjmofoope/concat.2.a.vcf.gz /tmp/DOjmofoope/concat.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -a  /tmp/DOjmofoope/concat.2.a.bcf /tmp/DOjmofoope/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -a  /tmp/DOjmofoope/concat.2.a.bcf /tmp/DOjmofoope/concat.2.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -aD  /tmp/DOjmofoope/concat.2.a.vcf.gz /tmp/DOjmofoope/concat.2.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -aD  /tmp/DOjmofoope/concat.2.a.vcf.gz /tmp/DOjmofoope/concat.2.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -aD  /tmp/DOjmofoope/concat.2.a.bcf /tmp/DOjmofoope/concat.2.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -aD  /tmp/DOjmofoope/concat.2.a.bcf /tmp/DOjmofoope/concat.2.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -l --ligate-warn  /tmp/DOjmofoope/concat.3.a.vcf.gz /tmp/DOjmofoope/concat.3.b.vcf.gz /tmp/DOjmofoope/concat.3.0.vcf.gz /tmp/DOjmofoope/concat.3.c.vcf.gz /tmp/DOjmofoope/concat.3.d.vcf.gz /tmp/DOjmofoope/concat.3.e.vcf.gz /tmp/DOjmofoope/concat.3.f.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -l --ligate-warn  /tmp/DOjmofoope/concat.3.a.vcf.gz /tmp/DOjmofoope/concat.3.b.vcf.gz /tmp/DOjmofoope/concat.3.0.vcf.gz /tmp/DOjmofoope/concat.3.c.vcf.gz /tmp/DOjmofoope/concat.3.d.vcf.gz /tmp/DOjmofoope/concat.3.e.vcf.gz /tmp/DOjmofoope/concat.3.f.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -l --ligate-warn  /tmp/DOjmofoope/concat.3.a.bcf /tmp/DOjmofoope/concat.3.b.bcf /tmp/DOjmofoope/concat.3.0.bcf /tmp/DOjmofoope/concat.3.c.bcf /tmp/DOjmofoope/concat.3.d.bcf /tmp/DOjmofoope/concat.3.e.bcf /tmp/DOjmofoope/concat.3.f.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -l --ligate-warn  /tmp/DOjmofoope/concat.3.a.bcf /tmp/DOjmofoope/concat.3.b.bcf /tmp/DOjmofoope/concat.3.0.bcf /tmp/DOjmofoope/concat.3.c.bcf /tmp/DOjmofoope/concat.3.d.bcf /tmp/DOjmofoope/concat.3.e.bcf /tmp/DOjmofoope/concat.3.f.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
Random seed for test_naive_concat: 3592281897
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --naive-force /tmp/DOjmofoope/naive_concat.0.bcf /tmp/DOjmofoope/naive_concat.1.bcf /tmp/DOjmofoope/naive_concat.2.bcf /tmp/DOjmofoope/naive_concat.3.bcf /tmp/DOjmofoope/naive_concat.4.bcf /tmp/DOjmofoope/naive_concat.5.bcf /tmp/DOjmofoope/naive_concat.6.bcf /tmp/DOjmofoope/naive_concat.7.bcf /tmp/DOjmofoope/naive_concat.8.bcf /tmp/DOjmofoope/naive_concat.9.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_naive_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --naive /tmp/DOjmofoope/naive_concat.0.vcf.gz /tmp/DOjmofoope/naive_concat.1.vcf.gz /tmp/DOjmofoope/naive_concat.2.vcf.gz /tmp/DOjmofoope/naive_concat.3.vcf.gz /tmp/DOjmofoope/naive_concat.4.vcf.gz /tmp/DOjmofoope/naive_concat.5.vcf.gz /tmp/DOjmofoope/naive_concat.6.vcf.gz /tmp/DOjmofoope/naive_concat.7.vcf.gz /tmp/DOjmofoope/naive_concat.8.vcf.gz /tmp/DOjmofoope/naive_concat.9.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view -H
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -l  /tmp/DOjmofoope/concat.4.a.vcf.gz /tmp/DOjmofoope/concat.4.b.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -l  /tmp/DOjmofoope/concat.4.a.vcf.gz /tmp/DOjmofoope/concat.4.b.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -l  /tmp/DOjmofoope/concat.4.a.bcf /tmp/DOjmofoope/concat.4.b.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -l  /tmp/DOjmofoope/concat.4.a.bcf /tmp/DOjmofoope/concat.4.b.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -l --ligate-warn  /tmp/DOjmofoope/concat.5.a.vcf.gz /tmp/DOjmofoope/concat.5.b.vcf.gz /tmp/DOjmofoope/concat.5.c.vcf.gz
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -l --ligate-warn  /tmp/DOjmofoope/concat.5.a.vcf.gz /tmp/DOjmofoope/concat.5.b.vcf.gz /tmp/DOjmofoope/concat.5.c.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -l --ligate-warn  /tmp/DOjmofoope/concat.5.a.bcf /tmp/DOjmofoope/concat.5.b.bcf /tmp/DOjmofoope/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -l --ligate-warn  /tmp/DOjmofoope/concat.5.a.bcf /tmp/DOjmofoope/concat.5.b.bcf /tmp/DOjmofoope/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat --no-version -l --ligate-force  /tmp/DOjmofoope/concat.5.a.bcf /tmp/DOjmofoope/concat.5.b.bcf /tmp/DOjmofoope/concat.5.c.bcf
.. ok

test_vcf_concat:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools concat -Ob -l --ligate-force  /tmp/DOjmofoope/concat.5.a.bcf /tmp/DOjmofoope/concat.5.b.bcf /tmp/DOjmofoope/concat.5.c.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.hdr /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.hdr /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.hdr /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.hdr | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples2 /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples2 /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples2 /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples2 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples3 /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples3 /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples3 /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples3 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples4 /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.15.1/test/reheader.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples4 /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples4 /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/reheader.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -s /builddir/build/BUILD/bcftools-1.15.1/test/reheader.samples4 | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.empty.hdr /builddir/build/BUILD/bcftools-1.15.1/test/empty.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /builddir/build/BUILD/bcftools-1.15.1/test/empty.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.empty.hdr /tmp/DOjmofoope/empty.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/empty.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.empty.hdr /tmp/DOjmofoope/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	cat /tmp/DOjmofoope/empty.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.empty.hdr | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -f /builddir/build/BUILD/bcftools-1.15.1/test/reheader.fai /builddir/build/BUILD/bcftools-1.15.1/test/reheader.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -f /builddir/build/BUILD/bcftools-1.15.1/test/reheader.fai /tmp/DOjmofoope/reheader.2.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -f /builddir/build/BUILD/bcftools-1.15.1/test/reheader.fai /tmp/DOjmofoope/reheader.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.15.1/test/reheader.fai /builddir/build/BUILD/bcftools-1.15.1/test/reheader.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.15.1/test/reheader.fai /tmp/DOjmofoope/reheader.2.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_vcf_reheader:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools reheader -h /builddir/build/BUILD/bcftools-1.15.1/test/reheader.2.hdr -f /builddir/build/BUILD/bcftools-1.15.1/test/reheader.fai /tmp/DOjmofoope/reheader.2.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools view --no-version
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate --rename-chrs /tmp/DOjmofoope/rename.map -Ov /tmp/DOjmofoope/annotate.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate --rename-chrs /tmp/DOjmofoope/rename.map -Ob /tmp/DOjmofoope/annotate.bcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate --rename-chrs /tmp/DOjmofoope/rename.map -Ov /builddir/build/BUILD/bcftools-1.15.1/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_rename_chrs:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools annotate --rename-chrs /tmp/DOjmofoope/rename.map -Ob /builddir/build/BUILD/bcftools-1.15.1/test/annotate.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%CHROM\t%POS\n'
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --vcf-ids /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --vcf-ids --3N6 /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --vcf-ids --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,-
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert  --vcf-ids -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert  --vcf-ids -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.gen,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --3N6 -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.3N6.gen,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --3N6 -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.3N6.gen,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --vcf-ids -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --vcf-ids -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -G /builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.ids.gen.rev,/builddir/build/BUILD/bcftools-1.15.1/test/convert.gs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --tag PL /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --tag PL
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- --tag PL /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- --tag PL
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --vcf-ids /tmp/DOjmofoope/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/check.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- --vcf-ids /tmp/DOjmofoope/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/check.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --3N6 /tmp/DOjmofoope/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/check.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- --3N6 /tmp/DOjmofoope/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/check.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- --3N6
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --3N6 --vcf-ids /tmp/DOjmofoope/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/check.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g -,. --3N6 --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- --3N6 --vcf-ids /tmp/DOjmofoope/check.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/check.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -g .,- --3N6 --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -h -,.,. /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -h -,.,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -h .,-,. /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -h .,-,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -h .,-,. --vcf-ids /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -h .,-,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -h .,.,- /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert -h .,.,-
.. ok

test_vcf_convert_hls2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -H /builddir/build/BUILD/bcftools-1.15.1/test/convert.hls.gt.hap,/builddir/build/BUILD/bcftools-1.15.1/test/convert.hls.gt.legend,/builddir/build/BUILD/bcftools-1.15.1/test/convert.hls.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hls2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -H /builddir/build/BUILD/bcftools-1.15.1/test/convert.hls.gt.hap,/builddir/build/BUILD/bcftools-1.15.1/test/convert.hls.gt.legend,/builddir/build/BUILD/bcftools-1.15.1/test/convert.hls.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --haplegendsample -,.,. /tmp/DOjmofoope/convert.hap-missing.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.hap-missing.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert --haplegendsample -,.,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --hapsample -,. /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert --hapsample -,.
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --hapsample -,. --vcf-ids /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert --hapsample -,. --vcf-ids
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --hapsample .,- /tmp/DOjmofoope/convert.vcf.gz
.. ok

test_vcf_convert:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert --hapsample .,-
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --hapsample2vcf /builddir/build/BUILD/bcftools-1.15.1/test/convert.hs.gt.hap,/builddir/build/BUILD/bcftools-1.15.1/test/convert.hs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --hapsample2vcf /builddir/build/BUILD/bcftools-1.15.1/test/convert.hs.gt.hap,/builddir/build/BUILD/bcftools-1.15.1/test/convert.hs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --vcf-ids --hapsample2vcf /builddir/build/BUILD/bcftools-1.15.1/test/convert.hs.gt.ids.hap,/builddir/build/BUILD/bcftools-1.15.1/test/convert.hs.gt.samples | grep -v ^##
.. ok

test_vcf_convert_hs2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --vcf-ids --hapsample2vcf /builddir/build/BUILD/bcftools-1.15.1/test/convert.hs.gt.ids.hap,/builddir/build/BUILD/bcftools-1.15.1/test/convert.hs.gt.samples -Ou | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa /tmp/DOjmofoope/convert.gvcf.vcf.gz
.. ok

test_vcf_convert_gvcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools view -Ob /tmp/DOjmofoope/convert.gvcf.vcf.gz | /builddir/build/BUILD/bcftools-1.15.1/bcftools convert --gvcf2vcf -i'FILTER="PASS"' -f /builddir/build/BUILD/bcftools-1.15.1/test/gvcf.fa | grep -v ^##bcftools
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert --no-version  -c ID,CHROM,POS,AA -s SAMPLE1 -f /builddir/build/BUILD/bcftools-1.15.1/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.15.1/test/convert.23andme
.. ok

test_vcf_convert_tsv2vcf:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools convert -Ou  -c ID,CHROM,POS,AA -s SAMPLE1 -f /builddir/build/BUILD/bcftools-1.15.1/test/23andme.fa --tsv2vcf /builddir/build/BUILD/bcftools-1.15.1/test/convert.23andme | /builddir/build/BUILD/bcftools-1.15.1/bcftools view | grep -v ^##bcftools_
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa  -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.tab 
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa  -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.tab -c /tmp/DOjmofoope/consensus.1.chain.new >/dev/null; cat /tmp/DOjmofoope/consensus.1.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.tab 
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -H 1 -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.tab -c /tmp/DOjmofoope/consensus.2.chain.new >/dev/null; cat /tmp/DOjmofoope/consensus.2.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -I -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.tab 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -I -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.tab --mask-with X -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.tab --mask-with lc  
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -I -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.tab -c /tmp/DOjmofoope/consensus.3.chain.new >/dev/null; cat /tmp/DOjmofoope/consensus.3.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -H 1  
.. ok

test_vcf_consensus_chain:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -H 1  -c /tmp/DOjmofoope/consensus.4.chain.new >/dev/null; cat /tmp/DOjmofoope/consensus.4.chain.new
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus2.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus2.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus2.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus2.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/empty.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus3.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus2.fa -H 2 -M "?"  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus3.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus2.fa -H 2 -M "?" -p xx_  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus4.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus2.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus5.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus5.fa --haplotype LA  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus6.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus6.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus7.fa -H 2  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus7.fa -H 2pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus7.fa -H 1  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus7.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus7.fa -H 1pIu  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -a .  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -a . -i 'type="snp" || type="ref"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -a . -i 'ALT!="<DEL>"'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -a . -e 'MinDP>15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus8.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -a . -e 'MinDP<15'  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.9.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.9.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.10.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.9.1.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.10.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.9.2.fa -H A  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.11.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.11.fa -s smpl  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.11.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.11.fa -s smpl -a N  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.12.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.13.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.13.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.14.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.14.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.12.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.12.fa --mark-del - --mark-ins uc --mark-snv uc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.15.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.16.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.16.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.fa -H I  
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.17.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus2.fa -M N -m /builddir/build/BUILD/bcftools-1.15.1/test/consensus.17.bed 
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.18.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.18.fa   
.. ok

test_vcf_consensus:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools consensus /tmp/DOjmofoope/consensus.19.vcf.gz -f /builddir/build/BUILD/bcftools-1.15.1/test/consensus.19.fa   
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -b /tmp/DOjmofoope/mpileup.bam.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob -b /tmp/DOjmofoope/mpileup.bam.urllist | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -b /tmp/DOjmofoope/mpileup.cram.list --no-version | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob -b /tmp/DOjmofoope/mpileup.cram.urllist | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -B --ff 0x14 -r17:1050-1060 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DPR,DV,DP4,INFO/DPR,SP -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r17:100-600 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a DP,DV -r17:100-200,17:201-300,17:301-400,17:401-500,17:501-600 --gvcf 0,2,5 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -s HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -s ^HG00101,HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.15.1/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.15.1/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.15.1/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -r17:100-150 -S ^/builddir/build/BUILD/bcftools-1.15.1/test/mplp.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -S /builddir/build/BUILD/bcftools-1.15.1/test/mplp.9.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t17:100-150 -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.10.samples -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.1.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.2.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup  -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup  -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup  -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup  -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup  -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup  -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s HG00102 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -s ^HG99999 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.sam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.bam /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -G /builddir/build/BUILD/bcftools-1.15.1/test/mplp.11.rgs -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.ref.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.3.cram /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup.4.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.1.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a AD -r 11:75 --ambig-reads incAD0 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/indel-AD.2.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.bam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.bam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.cram | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -a INFO/SCR,FMT/SCR -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.cram | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t 1:100 --skip-all-set PAIRED,PROPER_PAIR,MREVERSE -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t 1:100 --skip-all-set PAIRED,PROPER_PAIR,MREVERSE -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t 1:100 --skip-any-set READ1 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t 1:100 --skip-any-set READ1 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t 1:100 --skip-all-unset READ1 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t 1:100 --skip-all-unset READ1 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t 1:100 --skip-any-unset READ1 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-filter.sam | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_mpileup:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools mpileup -t 1:100 --skip-any-unset READ1 -f /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-SCR.fa -Ob /builddir/build/BUILD/bcftools-1.15.1/test/mpileup/mpileup-filter.sam | /builddir/build/BUILD/bcftools-1.15.1/bcftools view  | grep -v ^##bcftools | grep -v ^##reference
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq.gff3 /builddir/build/BUILD/bcftools-1.15.1/test/csq.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq.chr.gff3 /builddir/build/BUILD/bcftools-1.15.1/test/csq.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq.2.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq.2.gff --ncsq 64 /builddir/build/BUILD/bcftools-1.15.1/test/csq.2.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%TBCSQ\n]' | perl -pe 's/[\t,]/\n/g' | sort
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000624631/ENST00000624631.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000624631/ENST00000624631.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000624631/ambiguous.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000593942/ENST00000593942.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000593942/ENST00000593942.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000593942/last-codon-deletion.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/test/csq/ENST00000580206 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g short.gff compound.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff single.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g short.gff single.ins-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g short.gff single.del-snv.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000580206.fa -g short.gff single.del-ins.vcf  | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000573314/ENST00000573314.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000573314/ENST00000573314.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000573314/ENST00000573314.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000573314/ENST00000573314.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000557788/ENST00000557788.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000557788/ENST00000557788.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000557788/long-overlap-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000545279/ENST00000545279.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000545279/ENST00000545279.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000545279/splice-region-insert.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000543077/ENST00000543077.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000543077/ENST00000543077.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000543077/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000543077/ENST00000543077.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000543077/ENST00000543077.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000543077/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000542803/ENST00000542803.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000542803/ENST00000542803.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000542803/splice-region.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000542803/ENST00000542803.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000542803/ENST00000542803.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000542803/splice-region.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000536784/ENST00000536784.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000536784/ENST00000536784.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000536784/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000536784/ENST00000536784.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000536784/ENST00000536784.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000536784/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000528237/ENST00000528237.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000528237/ENST00000528237.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000528237/retained-stop-incomplete-cds.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520868/ENST00000520868.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520868/ENST00000520868.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520868/long-deletion.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520795/ENST00000520795.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520795/ENST00000520795.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520795/long-inside-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520795/ENST00000520795.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520795/ENST00000520795.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000520795/long-inside-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000519442/ENST00000519442.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000519442/ENST00000519442.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000519442/synon-splice-region-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000518414/ENST00000518414.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000518414/ENST00000518414.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000518414/incorrect-inframe-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000518414-ENST00000521270/valgrind.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000479739/ENST00000479739.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000479739/ENST00000479739.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000479739/short-cds-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000479739/ENST00000479739.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000479739/ENST00000479739.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000479739/short-cds-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000448695/ENST00000448695.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000448695/ENST00000448695.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000448695/syn-and-splice-reg.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000436063/ENST00000436063.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000436063/ENST00000436063.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000436063/insert-before-utr.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/snps.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/snps.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/insert3.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/ENST00000423372.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/ENST00000423372.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000423372/insert3.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/test/csq/ENST00000422159 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000422159.fa -g ENST00000422159.gff multiallelic.vcf  | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENST00000422159.fa -g short.gff multiallelic.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420670/ENST00000420670.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420670/ENST00000420670.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420670/start-stop-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420670/ENST00000420670.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420670/ENST00000420670.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420670/segfault.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420190/ENST00000420190.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420190/ENST00000420190.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000420190/abort-in-csq-push.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000413103/ENST00000413103.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000413103/ENST00000413103.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000413103/long-deletion.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000410009/ENST00000410009.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000410009/ENST00000410009.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000410009/frameshift.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -B 5 -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -lb -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000410009 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -b -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000409523/ENST00000409523.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000409523/ENST00000409523.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000409523/long-overlapping-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000400151/ENST00000400151.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000400151/ENST00000400151.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000400151/long-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000390520/ENST00000390520.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000390520/ENST00000390520.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000390520/deletion-overlap.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000382647/ENST00000382647.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000382647/ENST00000382647.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000382647/synon-splice-region-insert.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000381157/ENST00000381157.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000381157/ENST00000381157.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000381157/haploid-diploid.vcf | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000379416 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.del-snp.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-del.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-ins.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-snp.vcf       | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff single.vcf                 | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000378322/ENST00000378322.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000378322/ENST00000378322.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000378322/end-overlap-tscript.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000378322/ENST00000378322.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000378322/ENST00000378322.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000378322/end-overlap-tscript.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000375992/ENST00000375992.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000375992/ENST00000375992.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000375992/incorrect-synon-del-not-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000373833/ENST00000373833.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000373833/ENST00000373833.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000373833/boundary-insertion.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000373833/ENST00000373833.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000373833/ENST00000373833.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000373833/boundary-insertion.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000368801/ENST00000368801.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000368801/ENST00000368801.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000368801/compound-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000368801.2/ENST00000368801.2.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000368801.2/ENST00000368801.2.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000368801.2/start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000357367/ENST00000357367.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000357367/ENST00000357367.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000357367/stop-retained.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/frame3.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/frame3.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/frame2.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/frame2.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/frame1.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/ENST00000341065.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000341065/frame1.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000329454/ENST00000329454.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000329454/ENST00000329454.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000329454/boundary-deletion.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000329454/ENST00000329454.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000329454/ENST00000329454.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000329454/boundary-deletion.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249/ENST00000318249.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249/ENST00000318249.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249/start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249/ENST00000318249.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249/ENST00000318249.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249/start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249.2/ENST00000318249.2.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249.2/ENST00000318249.2.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000318249.2/synonymous-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000303039/ENST00000303039.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000303039/ENST00000303039.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000303039/not-a-stop.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000303039/ENST00000303039.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000303039/ENST00000303039.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000303039/not-a-stop.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000301246/ENST00000301246.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000301246/ENST00000301246.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000301246/15bp-insert.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000295641/ENST00000295641.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000295641/ENST00000295641.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000295641/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000295641/ENST00000295641.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000295641/ENST00000295641.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000295641/not-a-start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000294661/ENST00000294661.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000294661/ENST00000294661.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000294661/non-coding-boundary.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000294661/ENST00000294661.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000294661/ENST00000294661.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000294661/non-coding-boundary.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000285021/ENST00000285021.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000285021/ENST00000285021.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000285021/stop-gained-inframe-indel.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000271583/ENST00000271583.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000271583/ENST00000271583.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000271583/splice-acceptor.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000269081/ENST00000269081.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000269081/ENST00000269081.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000269081/stop-gained-not-inframe-insertion.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000263103-INS/ENST00000263103-INS.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000263103-INS/ENST00000263103-INS.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000263103-INS/insertions.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000256452/ENST00000256452.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000256452/ENST00000256452.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000256452/intron.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000230048/ENST00000230048.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000230048/ENST00000230048.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000230048/start-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000227471/ENST00000227471.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000227471/ENST00000227471.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000227471/insert-splice-vs-frameshift.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/start-lost.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/ENST00000218032.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/ENST00000218032.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENST00000218032/start-lost-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/test/csq/ENST00000000000 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -p a -f ENST00000000000.fa -g ENST00000000000.gff upstream-stop.vcf  | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'[%POS\t%REF\t%ALT\t%SAMPLE\t%GT\t%TBCSQ\n]' | ../sort-csq -q
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENSMUST00000133836 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENSMUST00000133836.fa -g ENSMUST00000133836.gff filter-problem.vcf -i 'FILTER="PASS"' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25500' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25496' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	cd /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENSMUST00000121418 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25105' --phase m | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENSG00000173376/ENSG00000173376.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENSG00000173376/ENSG00000173376.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/ENSG00000173376/synon.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/test/csq/EMN908947 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f EMN908947.fa -g simple.gff simple.vcf | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/test/csq/EMN908947 && /builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f EMN908947.fa -g ribosomal-slippage.gff ribosomal-slippage.vcf --force | ../sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0003/EDUMMY0003.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0003/EDUMMY0003.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0003/long-del.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0002/EDUMMY0002.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0002/EDUMMY0002.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0002/boundaries.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0001/EDUMMY0001.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0001/EDUMMY0001.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0001/starts-with-1.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok

test_csq_real:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools csq -l -f /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0001/EDUMMY0001.fa -g /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0001/EDUMMY0001.gff /builddir/build/BUILD/bcftools-1.15.1/test/csq/EDUMMY0001/starts-with-1.vcf | /builddir/build/BUILD/bcftools-1.15.1/test/csq/sort-csq | /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools roh /builddir/build/BUILD/bcftools-1.15.1/test/roh.1.vcf.gz -Or -G30 --AF-dflt 0.4| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools roh /builddir/build/BUILD/bcftools-1.15.1/test/roh.1.vcf.gz -Or -G30 --AF-file /builddir/build/BUILD/bcftools-1.15.1/test/roh.1.tab.gz| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools roh /builddir/build/BUILD/bcftools-1.15.1/test/roh.1.vcf.gz -Or -G30 --AF-file /builddir/build/BUILD/bcftools-1.15.1/test/roh.1.tab.gz --ignore-homref| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools roh /builddir/build/BUILD/bcftools-1.15.1/test/roh.1.vcf.gz     -G30 --AF-dflt 0.4 -r 1:100174876-100318245| grep -v ^#
.. ok

test_roh:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools roh /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools roh /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools roh /builddir/build/BUILD/bcftools-1.15.1/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-1.15.1/bcftools gtcheck -e 0 /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u GT,GT /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u GT,PL /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u PL,GT /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u PL,PL /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -p s1,s1 /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 /tmp/DOjmofoope/gtcheck.2.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0  /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/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/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.15.1/test/gtcheck.3.pairs /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u PL /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 --n-matches 4 /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO  | sort
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -s qry:E,D,C /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -s qry:E,D,C -u PL /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -s qry:B -s gt:D /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -s qry:B -s gt:D -u PL /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -s qry:B -s gt:D,C /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -p B,C,B,D /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u GT,GT -H /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u GT,PL -H /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u PL,GT -H /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -u PL,PL -H /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.15.1/test/gtcheck.4.pairs --distinctive-sites 3 /tmp/DOjmofoope/gtcheck.4.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -e 0 -P /builddir/build/BUILD/bcftools-1.15.1/test/gtcheck.4.pairs --distinctive-sites 3,1 /tmp/DOjmofoope/gtcheck.4.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -u GT -e 30 /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -u GT -e 300 /tmp/DOjmofoope/gtcheck.1.vcf.gz -g /tmp/DOjmofoope/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck -u PL -e 30 /tmp/DOjmofoope/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck  /tmp/DOjmofoope/gtcheck.ntop.vcf.gz -g /tmp/DOjmofoope/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck --n-matches 2 /tmp/DOjmofoope/gtcheck.ntop.vcf.gz -g /tmp/DOjmofoope/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/builddir/build/BUILD/bcftools-1.15.1/bcftools gtcheck  /tmp/DOjmofoope/gtcheck.5.vcf.gz -g /tmp/DOjmofoope/gtcheck.5.gts.vcf.gz | grep -v ^# | grep -v Time
.. ok


Number of tests:
    total   .. 1725
    passed  .. 1725
    failed  .. 0

+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: bcftools-1.15.1-1.fc38.aarch64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.UEx2Ix
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.15.1
+ DOCDIR=/builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/doc/bcftools
+ export LC_ALL=C
+ LC_ALL=C
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/doc/bcftools
+ cp -pr AUTHORS /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/doc/bcftools
+ cp -pr NEWS /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/doc/bcftools
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.QBQChO
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.15.1
+ LICENSEDIR=/builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/licenses/bcftools
+ export LC_ALL=C
+ LC_ALL=C
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/licenses/bcftools
+ cp -pr LICENSE /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64/usr/share/licenses/bcftools
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: bcftools = 1.15.1-1.fc38 bcftools(aarch-64) = 1.15.1-1.fc38
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 ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libgsl.so.25()(64bit) libgslcblas.so.0()(64bit) libhts.so.3()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libperl.so.5.36()(64bit) libz.so.1()(64bit) rtld(GNU_HASH)
Conflicts: samtools < 1.0
Processing files: bcftools-debugsource-1.15.1-1.fc38.aarch64
Provides: bcftools-debugsource = 1.15.1-1.fc38 bcftools-debugsource(aarch-64) = 1.15.1-1.fc38
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: bcftools-debuginfo-1.15.1-1.fc38.aarch64
Provides: bcftools-debuginfo = 1.15.1-1.fc38 bcftools-debuginfo(aarch-64) = 1.15.1-1.fc38 debuginfo(build-id) = 04643461cddcb02c908016195be9595e3ba82a5e debuginfo(build-id) = 04bf9748baaa799b014ce8a56042f99e007afc3d debuginfo(build-id) = 0761079810ac9ef202cbadd97beb816d1e9696af debuginfo(build-id) = 195d6be7bc3473e74b4f4641a51c0336770132c3 debuginfo(build-id) = 1b3536fd8aaa682c0bae8dbcca6c7af9ebdf56bb debuginfo(build-id) = 1d173ee039aaabd2756638ede4c060db395330cd debuginfo(build-id) = 232bf09859983b8b69671fed4ea3749cfe126542 debuginfo(build-id) = 295d0bc32c75e54d760d126fe87ab7dcf7c3773e debuginfo(build-id) = 298a2118c5464c8d9f0b859bd339fcd8ffecfc70 debuginfo(build-id) = 2de124ea2b3826d898a846798548bfd095908096 debuginfo(build-id) = 4ae1dfa3b66ac6e701d95f9d78dbfa8e0fb234fc debuginfo(build-id) = 4c9278d316151e2b96d1ee3d017bcede7356ebf8 debuginfo(build-id) = 4edd38215b7751e97c116d49750f70b791957543 debuginfo(build-id) = 66f49ff8bc0bff80cc77e6f25d91bc71727df8c7 debuginfo(build-id) = 687704453fd5ebdc4bc5ecfe33ba06f9f4950ea8 debuginfo(build-id) = 6adc2eac17584141ce0a7f30f870129e6e249b3b debuginfo(build-id) = 6c22ecd17d02c9ecb8fcf575a3e50896e0536d12 debuginfo(build-id) = 6f427daa04aad47ca85b7c94aedc74deff52997a debuginfo(build-id) = 7aeaa3a185816bd7a392dc6c6729a2423da5b429 debuginfo(build-id) = 82f1c3cebc70b10d4963cb0072e6c66a61233de4 debuginfo(build-id) = 9b579791608b866af9f9091378064beb372e2082 debuginfo(build-id) = 9bd2cf52494052da2b16fd06d0c7ec837ce1f5a5 debuginfo(build-id) = 9f6d4fda3d6a64e38a2c065fbe8507cea23d9e18 debuginfo(build-id) = a1384516e683d86d2b2be48a9b569adec95ea0bf debuginfo(build-id) = aac796aba76b64ef33a19d7b3344a63e2219bb21 debuginfo(build-id) = ae2d428c7a57b99ff9a183989db9e2412f52303e debuginfo(build-id) = c0f9e2c55b3fa1e55d589a28f8a38ad745259b5e debuginfo(build-id) = c1e38832dc827bbb56fef6d8b978b8cb64694b6d debuginfo(build-id) = c3742b257a0736f8a5c343b69c0bde1a63b2a925 debuginfo(build-id) = c7da36a344f633e57f1953a1698295d3f12d9dd4 debuginfo(build-id) = d38890f3aab5aeb64f81c6aa1956abbe7e554a4a debuginfo(build-id) = d39c8dbdc5f78c94a280f43c6cb687bdfc4e1dcb debuginfo(build-id) = d3ba568a64e63ecddb85d686f3efa6c6a2aa023f debuginfo(build-id) = d63c145db8911cc8d467280cdc5ab701a52577bd debuginfo(build-id) = db38520e8d73d5b5be6ea9a2474f6d777257ce47 debuginfo(build-id) = de9213cd9f7bcff2c5ab69b7559026de64d88673 debuginfo(build-id) = df34abe4d5e10584d0465c7781be112512dbd56b debuginfo(build-id) = e392985051a0eda2f243747e8cd4ce2fb0b7cfdb debuginfo(build-id) = ebe4f9a153c01b4a5a9ef41093dedb6d925b6de7
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: bcftools-debugsource(aarch-64) = 1.15.1-1.fc38
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64
Wrote: /builddir/build/RPMS/bcftools-1.15.1-1.fc38.aarch64.rpm
Wrote: /builddir/build/RPMS/bcftools-debugsource-1.15.1-1.fc38.aarch64.rpm
Wrote: /builddir/build/RPMS/bcftools-debuginfo-1.15.1-1.fc38.aarch64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.rVfp8P
+ umask 022
+ cd /builddir/build/BUILD
+ cd bcftools-1.15.1
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/bcftools-1.15.1-1.fc38.aarch64
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.JzBKah
+ umask 022
+ cd /builddir/build/BUILD
+ rm -rf bcftools-1.15.1 bcftools-1.15.1.gemspec
+ RPM_EC=0
++ jobs -p
+ exit 0
Finish: rpmbuild bcftools-1.15.1-1.fc38.src.rpm
Finish: build phase for bcftools-1.15.1-1.fc38.src.rpm
INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan
INFO: /var/lib/mock/fedora-rawhide-aarch64-1660580509.310641/root/var/log/dnf.rpm.log
/var/lib/mock/fedora-rawhide-aarch64-1660580509.310641/root/var/log/dnf.librepo.log
/var/lib/mock/fedora-rawhide-aarch64-1660580509.310641/root/var/log/dnf.log
INFO: Done(/var/lib/copr-rpmbuild/results/bcftools-1.15.1-1.fc38.src.rpm) Config(child) 3 minutes 5 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