Diff of the two buildlogs:
--
--- b1/build.log 2025-03-12 01:29:09.819974632 +0000
+++ b2/build.log 2025-03-12 01:31:02.106954762 +0000
@@ -1,6 +1,6 @@
I: pbuilder: network access will be disabled during build
-I: Current time: Tue Mar 11 13:20:45 -12 2025
-I: pbuilder-time-stamp: 1741742445
+I: Current time: Tue Apr 14 21:52:08 +14 2026
+I: pbuilder-time-stamp: 1776153128
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz]
I: copying local configuration
@@ -25,52 +25,84 @@
dpkg-source: info: applying 2to3.patch
I: Not using root during the build.
I: Installing the build-deps
-I: user script /srv/workspace/pbuilder/49495/tmp/hooks/D02_print_environment starting
+I: user script /srv/workspace/pbuilder/812667/tmp/hooks/D01_modify_environment starting
+debug: Running on ionos15-amd64.
+I: Changing host+domainname to test build reproducibility
+I: Adding a custom variable just for the fun of it...
+I: Changing /bin/sh to bash
+'/bin/sh' -> '/bin/bash'
+lrwxrwxrwx 1 root root 9 Apr 14 07:52 /bin/sh -> /bin/bash
+I: Setting pbuilder2's login shell to /bin/bash
+I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other
+I: user script /srv/workspace/pbuilder/812667/tmp/hooks/D01_modify_environment finished
+I: user script /srv/workspace/pbuilder/812667/tmp/hooks/D02_print_environment starting
I: set
- BUILDDIR='/build/reproducible-path'
- BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
- BUILDUSERNAME='pbuilder1'
- BUILD_ARCH='amd64'
- DEBIAN_FRONTEND='noninteractive'
- DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 '
- DISTRIBUTION='unstable'
- HOME='/root'
- HOST_ARCH='amd64'
+ BASH=/bin/sh
+ BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath
+ BASH_ALIASES=()
+ BASH_ARGC=()
+ BASH_ARGV=()
+ BASH_CMDS=()
+ BASH_LINENO=([0]="12" [1]="0")
+ BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:.
+ BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment")
+ BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu")
+ BASH_VERSION='5.2.37(1)-release'
+ BUILDDIR=/build/reproducible-path
+ BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
+ BUILDUSERNAME=pbuilder2
+ BUILD_ARCH=amd64
+ DEBIAN_FRONTEND=noninteractive
+ DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 '
+ DIRSTACK=()
+ DISTRIBUTION=unstable
+ EUID=0
+ FUNCNAME=([0]="Echo" [1]="main")
+ GROUPS=()
+ HOME=/root
+ HOSTNAME=i-capture-the-hostname
+ HOSTTYPE=x86_64
+ HOST_ARCH=amd64
IFS='
'
- INVOCATION_ID='642d1c5e33154df79085fa8dec1bf9c0'
- LANG='C'
- LANGUAGE='en_US:en'
- LC_ALL='C'
- MAIL='/var/mail/root'
- OPTIND='1'
- PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
- PBCURRENTCOMMANDLINEOPERATION='build'
- PBUILDER_OPERATION='build'
- PBUILDER_PKGDATADIR='/usr/share/pbuilder'
- PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
- PBUILDER_SYSCONFDIR='/etc'
- PPID='49495'
- PS1='# '
- PS2='> '
+ INVOCATION_ID=9e5e92b2e6a04644910ca509accdff86
+ LANG=C
+ LANGUAGE=et_EE:et
+ LC_ALL=C
+ MACHTYPE=x86_64-pc-linux-gnu
+ MAIL=/var/mail/root
+ OPTERR=1
+ OPTIND=1
+ OSTYPE=linux-gnu
+ PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path
+ PBCURRENTCOMMANDLINEOPERATION=build
+ PBUILDER_OPERATION=build
+ PBUILDER_PKGDATADIR=/usr/share/pbuilder
+ PBUILDER_PKGLIBDIR=/usr/lib/pbuilder
+ PBUILDER_SYSCONFDIR=/etc
+ PIPESTATUS=([0]="0")
+ POSIXLY_CORRECT=y
+ PPID=812667
PS4='+ '
- PWD='/'
- SHELL='/bin/bash'
- SHLVL='2'
- SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.8dIXze9m/pbuilderrc_EXL1 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.8dIXze9m/b1 --logfile b1/build.log bcftools_1.21-1.dsc'
- SUDO_GID='111'
- SUDO_UID='106'
- SUDO_USER='jenkins'
- TERM='unknown'
- TZ='/usr/share/zoneinfo/Etc/GMT+12'
- USER='root'
- _='/usr/bin/systemd-run'
- http_proxy='http://46.16.76.132:3128'
+ PWD=/
+ SHELL=/bin/bash
+ SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix
+ SHLVL=3
+ SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.8dIXze9m/pbuilderrc_TWpq --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.8dIXze9m/b2 --logfile b2/build.log bcftools_1.21-1.dsc'
+ SUDO_GID=111
+ SUDO_UID=106
+ SUDO_USER=jenkins
+ TERM=unknown
+ TZ=/usr/share/zoneinfo/Etc/GMT-14
+ UID=0
+ USER=root
+ _='I: set'
+ http_proxy=http://213.165.73.152:3128
I: uname -a
- Linux ionos11-amd64 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux
+ Linux i-capture-the-hostname 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux
I: ls -l /bin
- lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin
-I: user script /srv/workspace/pbuilder/49495/tmp/hooks/D02_print_environment finished
+ lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin
+I: user script /srv/workspace/pbuilder/812667/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
@@ -219,7 +251,7 @@
Get: 97 http://deb.debian.org/debian unstable/main amd64 libhts-dev amd64 1.21+ds-1 [1733 kB]
Get: 98 http://deb.debian.org/debian unstable/main amd64 libio-pty-perl amd64 1:1.20-1+b3 [34.3 kB]
Get: 99 http://deb.debian.org/debian unstable/main amd64 tabix amd64 1.21+ds-1 [496 kB]
-Fetched 42.9 MB in 1s (32.7 MB/s)
+Fetched 42.9 MB in 8s (5068 kB/s)
Preconfiguring packages ...
Selecting previously unselected package sensible-utils.
(Reading database ...
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 19783 files and directories currently installed.)
@@ -630,7 +662,11 @@
Building tag database...
-> Finished parsing the build-deps
I: Building the package
-I: Running cd /build/reproducible-path/bcftools-1.21/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../bcftools_1.21-1_source.changes
+I: user script /srv/workspace/pbuilder/812667/tmp/hooks/A99_set_merged_usr starting
+Not re-configuring usrmerge for unstable
+I: user script /srv/workspace/pbuilder/812667/tmp/hooks/A99_set_merged_usr finished
+hostname: Name or service not known
+I: Running cd /build/reproducible-path/bcftools-1.21/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../bcftools_1.21-1_source.changes
dpkg-buildpackage: info: source package bcftools
dpkg-buildpackage: info: source version 1.21-1
dpkg-buildpackage: info: source distribution unstable
@@ -643,7 +679,7 @@
debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/bcftools-1.21'
dh_auto_clean
- make -j20 distclean
+ make -j42 distclean
make[2]: Entering directory '/build/reproducible-path/bcftools-1.21'
rm -f test/*.o test/*.fa.fai test/*~ test/test-rbuf test/test-regidx
rm -f plugins/*.so plugins/*.P
@@ -703,7 +739,7 @@
config.status: creating config.h
make[1]: Leaving directory '/build/reproducible-path/bcftools-1.21'
dh_auto_build
- make -j20
+ make -j42
make[1]: Entering directory '/build/reproducible-path/bcftools-1.21'
echo '#define BCFTOOLS_VERSION "1.21"' > version.h
gcc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/bcftools-1.21=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfindex.o vcfindex.c
@@ -920,795 +956,795 @@
.. ok
test_tabix:
- tabix /tmp/tEeZNgWzTt/merge.a.vcf.gz 2:3199812-3199812
+ tabix /tmp/CSPvpz0kTu/merge.a.vcf.gz 2:3199812-3199812
.. ok
test_tabix:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/merge.a.bcf 2:3199812-3199812
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/merge.a.bcf 2:3199812-3199812
.. ok
test_tabix:
- tabix /tmp/tEeZNgWzTt/merge.a.vcf.gz 1:3000151-3000151
+ tabix /tmp/CSPvpz0kTu/merge.a.vcf.gz 1:3000151-3000151
.. ok
test_tabix:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/merge.a.bcf 1:3000151-3000151
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/merge.a.bcf 1:3000151-3000151
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.bcf chr20:1-2147483647
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.bcf chr20:1-2147483647
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.vcf.gz chr20:1-2147483647
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.bcf chr20:1-2147483647
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.bcf chr20:1-2147483647
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.vcf.gz chr20
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.vcf.gz chr20
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.bcf chr20
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.bcf chr20
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.bcf chr20
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.bcf chr20
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.vcf.gz chr20
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.vcf.gz chr20
.. ok
test_index:
- /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/tEeZNgWzTt/large_chrom_csi_limit.bcf chr20
+ /build/reproducible-path/bcftools-1.21/bcftools view -H /tmp/CSPvpz0kTu/large_chrom_csi_limit.bcf chr20
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/tEeZNgWzTt/idx.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/CSPvpz0kTu/idx.vcf.gz
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/tEeZNgWzTt/idx.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/CSPvpz0kTu/idx.vcf.gz
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/tEeZNgWzTt/idx.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/CSPvpz0kTu/idx.bcf
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/idx.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/idx.vcf.gz
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/idx.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/idx.vcf.gz
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/idx.vcf.gz.csi
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/idx.vcf.gz.csi
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/idx.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/idx.bcf
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/idx.bcf.csi
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/idx.bcf.csi
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/tEeZNgWzTt/empty.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/CSPvpz0kTu/empty.vcf.gz
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/tEeZNgWzTt/empty.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/CSPvpz0kTu/empty.vcf.gz
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/tEeZNgWzTt/empty.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools index -s /tmp/CSPvpz0kTu/empty.bcf
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/empty.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/empty.vcf.gz
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/empty.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/empty.vcf.gz
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/empty.vcf.gz.csi
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/empty.vcf.gz.csi
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/empty.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/empty.bcf
.. ok
test_vcf_idxstats:
- /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/tEeZNgWzTt/empty.bcf.csi
+ /build/reproducible-path/bcftools-1.21/bcftools index -n /tmp/CSPvpz0kTu/empty.bcf.csi
.. ok
test_vcf_check:
- /build/reproducible-path/bcftools-1.21/bcftools stats -s - /tmp/tEeZNgWzTt/check.vcf.gz | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID '
+ /build/reproducible-path/bcftools-1.21/bcftools stats -s - /tmp/CSPvpz0kTu/check.vcf.gz | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID '
.. ok
test_vcf_check:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools stats -s - | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID '
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools stats -s - | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID '
.. ok
test_vcf_check_merge:
- /build/reproducible-path/bcftools-1.21/misc/plot-vcfstats -m /tmp/tEeZNgWzTt/check.1.chk /tmp/tEeZNgWzTt/check.2.chk /tmp/tEeZNgWzTt/check.3.chk /tmp/tEeZNgWzTt/check.4.chk | grep -v 'plot-vcfstats' | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID '
+ /build/reproducible-path/bcftools-1.21/misc/plot-vcfstats -m /tmp/CSPvpz0kTu/check.1.chk /tmp/CSPvpz0kTu/check.2.chk /tmp/CSPvpz0kTu/check.3.chk /tmp/CSPvpz0kTu/check.4.chk | grep -v 'plot-vcfstats' | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID '
.. ok
test_vcf_stats:
- /build/reproducible-path/bcftools-1.21/bcftools stats -s - /tmp/tEeZNgWzTt/stats.a.vcf.gz /tmp/tEeZNgWzTt/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID '
+ /build/reproducible-path/bcftools-1.21/bcftools stats -s - /tmp/CSPvpz0kTu/stats.a.vcf.gz /tmp/CSPvpz0kTu/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID '
.. ok
test_vcf_stats:
- /build/reproducible-path/bcftools-1.21/bcftools stats -s B /tmp/tEeZNgWzTt/stats.a.vcf.gz /tmp/tEeZNgWzTt/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID '
+ /build/reproducible-path/bcftools-1.21/bcftools stats -s B /tmp/CSPvpz0kTu/stats.a.vcf.gz /tmp/CSPvpz0kTu/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID '
.. ok
test_vcf_stats:
- /build/reproducible-path/bcftools-1.21/bcftools stats -s - /tmp/tEeZNgWzTt/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID '
+ /build/reproducible-path/bcftools-1.21/bcftools stats -s - /tmp/CSPvpz0kTu/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID '
.. ok
test_vcf_stats:
- /build/reproducible-path/bcftools-1.21/bcftools stats -s - -i 'type="snp"' /tmp/tEeZNgWzTt/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID '
+ /build/reproducible-path/bcftools-1.21/bcftools stats -s - -i 'type="snp"' /tmp/CSPvpz0kTu/stats.counts.vcf.gz | grep -v '^#' | grep -v '^ID '
.. ok
test_vcf_stats:
- /build/reproducible-path/bcftools-1.21/bcftools stats -s - /tmp/tEeZNgWzTt/stats.vaf.vcf.gz | grep -v '^#' | grep -v '^ID '
+ /build/reproducible-path/bcftools-1.21/bcftools stats -s - /tmp/CSPvpz0kTu/stats.vaf.vcf.gz | grep -v '^#' | grep -v '^ID '
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -n =2 /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -n =2 /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n =2 /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n =2 /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -n =2 -i"STRLEN(REF)==2" /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -n =2 -i"STRLEN(REF)==2" /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n =2 -i"STRLEN(REF)==2" /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n =2 -i"STRLEN(REF)==2" /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -n =2 -c both /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -n =2 -c both /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n =2 -c both /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n =2 -c both /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -n =2 -c any /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -n =2 -c any /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n =2 -c any /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n =2 -c any /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -C -c any /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -C -c any /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -C -c any /tmp/tEeZNgWzTt/isec.a.vcf.gz /tmp/tEeZNgWzTt/isec.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -C -c any /tmp/CSPvpz0kTu/isec.a.vcf.gz /tmp/CSPvpz0kTu/isec.b.vcf.gz
.. ok
test_vcf_isec2:
- /build/reproducible-path/bcftools-1.21/bcftools isec --no-version -T /tmp/tEeZNgWzTt/isec.tab.gz /tmp/tEeZNgWzTt/isec.a.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec --no-version -T /tmp/CSPvpz0kTu/isec.tab.gz /tmp/CSPvpz0kTu/isec.a.vcf.gz
.. ok
test_vcf_isec2:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -T /tmp/tEeZNgWzTt/isec.tab.gz /tmp/tEeZNgWzTt/isec.a.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -T /tmp/CSPvpz0kTu/isec.tab.gz /tmp/CSPvpz0kTu/isec.a.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/tEeZNgWzTt/isec-miss.1.1.vcf.gz /tmp/tEeZNgWzTt/isec-miss.1.2.vcf.gz /tmp/tEeZNgWzTt/isec-miss.1.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/CSPvpz0kTu/isec-miss.1.1.vcf.gz /tmp/CSPvpz0kTu/isec-miss.1.2.vcf.gz /tmp/CSPvpz0kTu/isec-miss.1.3.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/tEeZNgWzTt/isec-miss.1.1.vcf.gz /tmp/tEeZNgWzTt/isec-miss.1.2.vcf.gz /tmp/tEeZNgWzTt/isec-miss.1.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/CSPvpz0kTu/isec-miss.1.1.vcf.gz /tmp/CSPvpz0kTu/isec-miss.1.2.vcf.gz /tmp/CSPvpz0kTu/isec-miss.1.3.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -R /build/reproducible-path/bcftools-1.21/test/isec-miss.1.regs.txt -n +1 /tmp/tEeZNgWzTt/isec-miss.1.1.vcf.gz /tmp/tEeZNgWzTt/isec-miss.1.2.vcf.gz /tmp/tEeZNgWzTt/isec-miss.1.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -R /build/reproducible-path/bcftools-1.21/test/isec-miss.1.regs.txt -n +1 /tmp/CSPvpz0kTu/isec-miss.1.1.vcf.gz /tmp/CSPvpz0kTu/isec-miss.1.2.vcf.gz /tmp/CSPvpz0kTu/isec-miss.1.3.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -R /build/reproducible-path/bcftools-1.21/test/isec-miss.1.regs.txt -n +1 /tmp/tEeZNgWzTt/isec-miss.1.1.vcf.gz /tmp/tEeZNgWzTt/isec-miss.1.2.vcf.gz /tmp/tEeZNgWzTt/isec-miss.1.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -R /build/reproducible-path/bcftools-1.21/test/isec-miss.1.regs.txt -n +1 /tmp/CSPvpz0kTu/isec-miss.1.1.vcf.gz /tmp/CSPvpz0kTu/isec-miss.1.2.vcf.gz /tmp/CSPvpz0kTu/isec-miss.1.3.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/tEeZNgWzTt/isec-miss.2.1.vcf.gz /tmp/tEeZNgWzTt/isec-miss.2.2.vcf.gz /tmp/tEeZNgWzTt/isec-miss.2.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/CSPvpz0kTu/isec-miss.2.1.vcf.gz /tmp/CSPvpz0kTu/isec-miss.2.2.vcf.gz /tmp/CSPvpz0kTu/isec-miss.2.3.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/tEeZNgWzTt/isec-miss.2.1.vcf.gz /tmp/tEeZNgWzTt/isec-miss.2.2.vcf.gz /tmp/tEeZNgWzTt/isec-miss.2.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -n +1 -r 20:100,20:140,12:55,20:140,20:100 /tmp/CSPvpz0kTu/isec-miss.2.1.vcf.gz /tmp/CSPvpz0kTu/isec-miss.2.2.vcf.gz /tmp/CSPvpz0kTu/isec-miss.2.3.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -R /build/reproducible-path/bcftools-1.21/test/isec-miss.1.regs.txt -n +1 /tmp/tEeZNgWzTt/isec-miss.2.1.vcf.gz /tmp/tEeZNgWzTt/isec-miss.2.2.vcf.gz /tmp/tEeZNgWzTt/isec-miss.2.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -R /build/reproducible-path/bcftools-1.21/test/isec-miss.1.regs.txt -n +1 /tmp/CSPvpz0kTu/isec-miss.2.1.vcf.gz /tmp/CSPvpz0kTu/isec-miss.2.2.vcf.gz /tmp/CSPvpz0kTu/isec-miss.2.3.vcf.gz
.. ok
test_vcf_isec:
- /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -R /build/reproducible-path/bcftools-1.21/test/isec-miss.1.regs.txt -n +1 /tmp/tEeZNgWzTt/isec-miss.2.1.vcf.gz /tmp/tEeZNgWzTt/isec-miss.2.2.vcf.gz /tmp/tEeZNgWzTt/isec-miss.2.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools isec -Ob -R /build/reproducible-path/bcftools-1.21/test/isec-miss.1.regs.txt -n +1 /tmp/CSPvpz0kTu/isec-miss.2.1.vcf.gz /tmp/CSPvpz0kTu/isec-miss.2.2.vcf.gz /tmp/CSPvpz0kTu/isec-miss.2.3.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.11.a.vcf.gz /tmp/tEeZNgWzTt/merge.11.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.11.a.vcf.gz /tmp/CSPvpz0kTu/merge.11.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.11.a.vcf.gz /tmp/tEeZNgWzTt/merge.11.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.11.a.vcf.gz /tmp/CSPvpz0kTu/merge.11.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.11.a.bcf /tmp/tEeZNgWzTt/merge.11.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.11.a.bcf /tmp/CSPvpz0kTu/merge.11.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.11.a.bcf /tmp/tEeZNgWzTt/merge.11.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.11.a.bcf /tmp/CSPvpz0kTu/merge.11.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AF:join /tmp/tEeZNgWzTt/merge.join.a.vcf.gz /tmp/tEeZNgWzTt/merge.join.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AF:join /tmp/CSPvpz0kTu/merge.join.a.vcf.gz /tmp/CSPvpz0kTu/merge.join.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AF:join /tmp/tEeZNgWzTt/merge.join.a.vcf.gz /tmp/tEeZNgWzTt/merge.join.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AF:join /tmp/CSPvpz0kTu/merge.join.a.vcf.gz /tmp/CSPvpz0kTu/merge.join.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AF:join /tmp/tEeZNgWzTt/merge.join.a.bcf /tmp/tEeZNgWzTt/merge.join.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AF:join /tmp/CSPvpz0kTu/merge.join.a.bcf /tmp/CSPvpz0kTu/merge.join.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AF:join /tmp/tEeZNgWzTt/merge.join.a.bcf /tmp/tEeZNgWzTt/merge.join.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AF:join /tmp/CSPvpz0kTu/merge.join.a.bcf /tmp/CSPvpz0kTu/merge.join.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-single /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-single /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-single /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-single /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-single /tmp/tEeZNgWzTt/merge.LPL.a.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-single /tmp/CSPvpz0kTu/merge.LPL.a.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-single /tmp/tEeZNgWzTt/merge.LPL.a.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-single /tmp/CSPvpz0kTu/merge.LPL.a.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 1 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 1 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 1 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 1 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 1 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 2 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 2 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 2 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 2 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 2 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 3 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 3 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 3 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 3 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 3 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 4 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 4 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 4 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 4 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 4 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 5 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 5 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/tEeZNgWzTt/merge.LPL.a.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.b.vcf.gz /tmp/tEeZNgWzTt/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/CSPvpz0kTu/merge.LPL.a.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.b.vcf.gz /tmp/CSPvpz0kTu/merge.LPL.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 5 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -L 5 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/tEeZNgWzTt/merge.LPL.a.bcf /tmp/tEeZNgWzTt/merge.LPL.b.bcf /tmp/tEeZNgWzTt/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -L 5 /tmp/CSPvpz0kTu/merge.LPL.a.bcf /tmp/CSPvpz0kTu/merge.LPL.b.bcf /tmp/CSPvpz0kTu/merge.LPL.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/tEeZNgWzTt/merge.a.vcf.gz /tmp/tEeZNgWzTt/merge.b.vcf.gz /tmp/tEeZNgWzTt/merge.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/CSPvpz0kTu/merge.a.vcf.gz /tmp/CSPvpz0kTu/merge.b.vcf.gz /tmp/CSPvpz0kTu/merge.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/tEeZNgWzTt/merge.a.vcf.gz /tmp/tEeZNgWzTt/merge.b.vcf.gz /tmp/tEeZNgWzTt/merge.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/CSPvpz0kTu/merge.a.vcf.gz /tmp/CSPvpz0kTu/merge.b.vcf.gz /tmp/CSPvpz0kTu/merge.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/tEeZNgWzTt/merge.a.bcf /tmp/tEeZNgWzTt/merge.b.bcf /tmp/tEeZNgWzTt/merge.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/CSPvpz0kTu/merge.a.bcf /tmp/CSPvpz0kTu/merge.b.bcf /tmp/CSPvpz0kTu/merge.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/tEeZNgWzTt/merge.a.bcf /tmp/tEeZNgWzTt/merge.b.bcf /tmp/tEeZNgWzTt/merge.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/CSPvpz0kTu/merge.a.bcf /tmp/CSPvpz0kTu/merge.b.bcf /tmp/CSPvpz0kTu/merge.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -Fx /tmp/tEeZNgWzTt/merge.a.vcf.gz /tmp/tEeZNgWzTt/merge.b.vcf.gz /tmp/tEeZNgWzTt/merge.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -Fx /tmp/CSPvpz0kTu/merge.a.vcf.gz /tmp/CSPvpz0kTu/merge.b.vcf.gz /tmp/CSPvpz0kTu/merge.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -Fx /tmp/tEeZNgWzTt/merge.a.vcf.gz /tmp/tEeZNgWzTt/merge.b.vcf.gz /tmp/tEeZNgWzTt/merge.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -Fx /tmp/CSPvpz0kTu/merge.a.vcf.gz /tmp/CSPvpz0kTu/merge.b.vcf.gz /tmp/CSPvpz0kTu/merge.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -Fx /tmp/tEeZNgWzTt/merge.a.bcf /tmp/tEeZNgWzTt/merge.b.bcf /tmp/tEeZNgWzTt/merge.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -Fx /tmp/CSPvpz0kTu/merge.a.bcf /tmp/CSPvpz0kTu/merge.b.bcf /tmp/CSPvpz0kTu/merge.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -Fx /tmp/tEeZNgWzTt/merge.a.bcf /tmp/tEeZNgWzTt/merge.b.bcf /tmp/tEeZNgWzTt/merge.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -Fx /tmp/CSPvpz0kTu/merge.a.bcf /tmp/CSPvpz0kTu/merge.b.bcf /tmp/CSPvpz0kTu/merge.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -0 /tmp/tEeZNgWzTt/merge.a.vcf.gz /tmp/tEeZNgWzTt/merge.b.vcf.gz /tmp/tEeZNgWzTt/merge.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -0 /tmp/CSPvpz0kTu/merge.a.vcf.gz /tmp/CSPvpz0kTu/merge.b.vcf.gz /tmp/CSPvpz0kTu/merge.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -0 /tmp/tEeZNgWzTt/merge.a.vcf.gz /tmp/tEeZNgWzTt/merge.b.vcf.gz /tmp/tEeZNgWzTt/merge.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -0 /tmp/CSPvpz0kTu/merge.a.vcf.gz /tmp/CSPvpz0kTu/merge.b.vcf.gz /tmp/CSPvpz0kTu/merge.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -0 /tmp/tEeZNgWzTt/merge.a.bcf /tmp/tEeZNgWzTt/merge.b.bcf /tmp/tEeZNgWzTt/merge.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -0 /tmp/CSPvpz0kTu/merge.a.bcf /tmp/CSPvpz0kTu/merge.b.bcf /tmp/CSPvpz0kTu/merge.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -0 /tmp/tEeZNgWzTt/merge.a.bcf /tmp/tEeZNgWzTt/merge.b.bcf /tmp/tEeZNgWzTt/merge.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -0 /tmp/CSPvpz0kTu/merge.a.bcf /tmp/CSPvpz0kTu/merge.b.bcf /tmp/CSPvpz0kTu/merge.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m none /tmp/tEeZNgWzTt/merge.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.2.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m none /tmp/CSPvpz0kTu/merge.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.2.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m none /tmp/tEeZNgWzTt/merge.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m none /tmp/CSPvpz0kTu/merge.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m none /tmp/tEeZNgWzTt/merge.2.a.bcf /tmp/tEeZNgWzTt/merge.2.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m none /tmp/CSPvpz0kTu/merge.2.a.bcf /tmp/CSPvpz0kTu/merge.2.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m none /tmp/tEeZNgWzTt/merge.2.a.bcf /tmp/tEeZNgWzTt/merge.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m none /tmp/CSPvpz0kTu/merge.2.a.bcf /tmp/CSPvpz0kTu/merge.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m both /tmp/tEeZNgWzTt/merge.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.2.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m both /tmp/CSPvpz0kTu/merge.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.2.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m both /tmp/tEeZNgWzTt/merge.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m both /tmp/CSPvpz0kTu/merge.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m both /tmp/tEeZNgWzTt/merge.2.a.bcf /tmp/tEeZNgWzTt/merge.2.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m both /tmp/CSPvpz0kTu/merge.2.a.bcf /tmp/CSPvpz0kTu/merge.2.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m both /tmp/tEeZNgWzTt/merge.2.a.bcf /tmp/tEeZNgWzTt/merge.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m both /tmp/CSPvpz0kTu/merge.2.a.bcf /tmp/CSPvpz0kTu/merge.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m all /tmp/tEeZNgWzTt/merge.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.2.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m all /tmp/CSPvpz0kTu/merge.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.2.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m all /tmp/tEeZNgWzTt/merge.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m all /tmp/CSPvpz0kTu/merge.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m all /tmp/tEeZNgWzTt/merge.2.a.bcf /tmp/tEeZNgWzTt/merge.2.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m all /tmp/CSPvpz0kTu/merge.2.a.bcf /tmp/CSPvpz0kTu/merge.2.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m all /tmp/tEeZNgWzTt/merge.2.a.bcf /tmp/tEeZNgWzTt/merge.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m all /tmp/CSPvpz0kTu/merge.2.a.bcf /tmp/CSPvpz0kTu/merge.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/tEeZNgWzTt/merge.3.a.vcf.gz /tmp/tEeZNgWzTt/merge.3.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/CSPvpz0kTu/merge.3.a.vcf.gz /tmp/CSPvpz0kTu/merge.3.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/tEeZNgWzTt/merge.3.a.vcf.gz /tmp/tEeZNgWzTt/merge.3.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/CSPvpz0kTu/merge.3.a.vcf.gz /tmp/CSPvpz0kTu/merge.3.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/tEeZNgWzTt/merge.3.a.bcf /tmp/tEeZNgWzTt/merge.3.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/CSPvpz0kTu/merge.3.a.bcf /tmp/CSPvpz0kTu/merge.3.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/tEeZNgWzTt/merge.3.a.bcf /tmp/tEeZNgWzTt/merge.3.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/CSPvpz0kTu/merge.3.a.bcf /tmp/CSPvpz0kTu/merge.3.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m id /tmp/tEeZNgWzTt/merge.4.a.vcf.gz /tmp/tEeZNgWzTt/merge.4.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m id /tmp/CSPvpz0kTu/merge.4.a.vcf.gz /tmp/CSPvpz0kTu/merge.4.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m id /tmp/tEeZNgWzTt/merge.4.a.vcf.gz /tmp/tEeZNgWzTt/merge.4.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m id /tmp/CSPvpz0kTu/merge.4.a.vcf.gz /tmp/CSPvpz0kTu/merge.4.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m id /tmp/tEeZNgWzTt/merge.4.a.bcf /tmp/tEeZNgWzTt/merge.4.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples -m id /tmp/CSPvpz0kTu/merge.4.a.bcf /tmp/CSPvpz0kTu/merge.4.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m id /tmp/tEeZNgWzTt/merge.4.a.bcf /tmp/tEeZNgWzTt/merge.4.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples -m id /tmp/CSPvpz0kTu/merge.4.a.bcf /tmp/CSPvpz0kTu/merge.4.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/gvcf.merge.1.vcf.gz /tmp/tEeZNgWzTt/gvcf.merge.2.vcf.gz /tmp/tEeZNgWzTt/gvcf.merge.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/gvcf.merge.1.vcf.gz /tmp/CSPvpz0kTu/gvcf.merge.2.vcf.gz /tmp/CSPvpz0kTu/gvcf.merge.3.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/gvcf.merge.1.vcf.gz /tmp/tEeZNgWzTt/gvcf.merge.2.vcf.gz /tmp/tEeZNgWzTt/gvcf.merge.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/gvcf.merge.1.vcf.gz /tmp/CSPvpz0kTu/gvcf.merge.2.vcf.gz /tmp/CSPvpz0kTu/gvcf.merge.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/gvcf.merge.1.bcf /tmp/tEeZNgWzTt/gvcf.merge.2.bcf /tmp/tEeZNgWzTt/gvcf.merge.3.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/gvcf.merge.1.bcf /tmp/CSPvpz0kTu/gvcf.merge.2.bcf /tmp/CSPvpz0kTu/gvcf.merge.3.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/gvcf.merge.1.bcf /tmp/tEeZNgWzTt/gvcf.merge.2.bcf /tmp/tEeZNgWzTt/gvcf.merge.3.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/gvcf.merge.1.bcf /tmp/CSPvpz0kTu/gvcf.merge.2.bcf /tmp/CSPvpz0kTu/gvcf.merge.3.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -m both,* /tmp/tEeZNgWzTt/merge.gvcf.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -m both,* /tmp/CSPvpz0kTu/merge.gvcf.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -m both,* /tmp/tEeZNgWzTt/merge.gvcf.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -m both,* /tmp/CSPvpz0kTu/merge.gvcf.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -m both,** /tmp/tEeZNgWzTt/merge.gvcf.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -m both,** /tmp/CSPvpz0kTu/merge.gvcf.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -m both,** /tmp/tEeZNgWzTt/merge.gvcf.2.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.2.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -m both,** /tmp/CSPvpz0kTu/merge.gvcf.2.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.2.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -i SRC:join /tmp/tEeZNgWzTt/merge.gvcf.3.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.3.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -i SRC:join /tmp/CSPvpz0kTu/merge.gvcf.3.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.3.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -i SRC:join /tmp/tEeZNgWzTt/merge.gvcf.3.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.3.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -i SRC:join /tmp/CSPvpz0kTu/merge.gvcf.3.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.3.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.4.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.4.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.4.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.4.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.4.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.4.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.4.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.4.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.4.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.4.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.4.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.4.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.4.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.4.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.4.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.4.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.5.a.vcf.gz /tmp/tEeZNgWzTt/merge.5.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.5.a.vcf.gz /tmp/CSPvpz0kTu/merge.5.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.5.a.vcf.gz /tmp/tEeZNgWzTt/merge.5.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.5.a.vcf.gz /tmp/CSPvpz0kTu/merge.5.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.5.a.bcf /tmp/tEeZNgWzTt/merge.5.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.5.a.bcf /tmp/CSPvpz0kTu/merge.5.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.5.a.bcf /tmp/tEeZNgWzTt/merge.5.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.5.a.bcf /tmp/CSPvpz0kTu/merge.5.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.6.a.vcf.gz /tmp/tEeZNgWzTt/merge.6.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.6.a.vcf.gz /tmp/CSPvpz0kTu/merge.6.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.6.a.vcf.gz /tmp/tEeZNgWzTt/merge.6.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.6.a.vcf.gz /tmp/CSPvpz0kTu/merge.6.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.6.a.bcf /tmp/tEeZNgWzTt/merge.6.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.6.a.bcf /tmp/CSPvpz0kTu/merge.6.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.6.a.bcf /tmp/tEeZNgWzTt/merge.6.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.6.a.bcf /tmp/CSPvpz0kTu/merge.6.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.7.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.7.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.7.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.7.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.7.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.7.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.7.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.7.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.7.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.7.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.7.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.7.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.7.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.7.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.7.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.7.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.8.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.8.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.8.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.8.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.8.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.8.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.8.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.8.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.8.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.8.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.8.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.8.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.8.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.8.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.8.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.8.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/tEeZNgWzTt/merge.7.a.vcf.gz /tmp/tEeZNgWzTt/merge.7.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/CSPvpz0kTu/merge.7.a.vcf.gz /tmp/CSPvpz0kTu/merge.7.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/tEeZNgWzTt/merge.7.a.vcf.gz /tmp/tEeZNgWzTt/merge.7.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/CSPvpz0kTu/merge.7.a.vcf.gz /tmp/CSPvpz0kTu/merge.7.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/tEeZNgWzTt/merge.7.a.bcf /tmp/tEeZNgWzTt/merge.7.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --force-samples /tmp/CSPvpz0kTu/merge.7.a.bcf /tmp/CSPvpz0kTu/merge.7.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/tEeZNgWzTt/merge.7.a.bcf /tmp/tEeZNgWzTt/merge.7.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --force-samples /tmp/CSPvpz0kTu/merge.7.a.bcf /tmp/CSPvpz0kTu/merge.7.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/merge.gvcf.9a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9c.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9d.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/merge.gvcf.9a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9c.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9d.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/merge.gvcf.9a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9c.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9d.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/merge.gvcf.9a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9c.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9d.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/merge.gvcf.9a.bcf /tmp/tEeZNgWzTt/merge.gvcf.9b.bcf /tmp/tEeZNgWzTt/merge.gvcf.9c.bcf /tmp/tEeZNgWzTt/merge.gvcf.9d.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/merge.gvcf.9a.bcf /tmp/CSPvpz0kTu/merge.gvcf.9b.bcf /tmp/CSPvpz0kTu/merge.gvcf.9c.bcf /tmp/CSPvpz0kTu/merge.gvcf.9d.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/merge.gvcf.9a.bcf /tmp/tEeZNgWzTt/merge.gvcf.9b.bcf /tmp/tEeZNgWzTt/merge.gvcf.9c.bcf /tmp/tEeZNgWzTt/merge.gvcf.9d.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/merge.gvcf.9a.bcf /tmp/CSPvpz0kTu/merge.gvcf.9b.bcf /tmp/CSPvpz0kTu/merge.gvcf.9c.bcf /tmp/CSPvpz0kTu/merge.gvcf.9d.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/tEeZNgWzTt/merge.gvcf.9a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9c.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9d.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/CSPvpz0kTu/merge.gvcf.9a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9c.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9d.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/tEeZNgWzTt/merge.gvcf.9a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9c.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9d.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/CSPvpz0kTu/merge.gvcf.9a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9c.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9d.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/tEeZNgWzTt/merge.gvcf.9a.bcf /tmp/tEeZNgWzTt/merge.gvcf.9b.bcf /tmp/tEeZNgWzTt/merge.gvcf.9c.bcf /tmp/tEeZNgWzTt/merge.gvcf.9d.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/CSPvpz0kTu/merge.gvcf.9a.bcf /tmp/CSPvpz0kTu/merge.gvcf.9b.bcf /tmp/CSPvpz0kTu/merge.gvcf.9c.bcf /tmp/CSPvpz0kTu/merge.gvcf.9d.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/tEeZNgWzTt/merge.gvcf.9a.bcf /tmp/tEeZNgWzTt/merge.gvcf.9b.bcf /tmp/tEeZNgWzTt/merge.gvcf.9c.bcf /tmp/tEeZNgWzTt/merge.gvcf.9d.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/CSPvpz0kTu/merge.gvcf.9a.bcf /tmp/CSPvpz0kTu/merge.gvcf.9b.bcf /tmp/CSPvpz0kTu/merge.gvcf.9c.bcf /tmp/CSPvpz0kTu/merge.gvcf.9d.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/merge.gvcf.9a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9c.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9d.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9e.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/merge.gvcf.9a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9c.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9d.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9e.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/merge.gvcf.9a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9c.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9d.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9e.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/merge.gvcf.9a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9c.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9d.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9e.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/merge.gvcf.9a.bcf /tmp/tEeZNgWzTt/merge.gvcf.9b.bcf /tmp/tEeZNgWzTt/merge.gvcf.9c.bcf /tmp/tEeZNgWzTt/merge.gvcf.9d.bcf /tmp/tEeZNgWzTt/merge.gvcf.9e.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/merge.gvcf.9a.bcf /tmp/CSPvpz0kTu/merge.gvcf.9b.bcf /tmp/CSPvpz0kTu/merge.gvcf.9c.bcf /tmp/CSPvpz0kTu/merge.gvcf.9d.bcf /tmp/CSPvpz0kTu/merge.gvcf.9e.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/merge.gvcf.9a.bcf /tmp/tEeZNgWzTt/merge.gvcf.9b.bcf /tmp/tEeZNgWzTt/merge.gvcf.9c.bcf /tmp/tEeZNgWzTt/merge.gvcf.9d.bcf /tmp/tEeZNgWzTt/merge.gvcf.9e.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/merge.gvcf.9a.bcf /tmp/CSPvpz0kTu/merge.gvcf.9b.bcf /tmp/CSPvpz0kTu/merge.gvcf.9c.bcf /tmp/CSPvpz0kTu/merge.gvcf.9d.bcf /tmp/CSPvpz0kTu/merge.gvcf.9e.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/tEeZNgWzTt/merge.gvcf.9a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9c.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9d.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9e.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/CSPvpz0kTu/merge.gvcf.9a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9c.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9d.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9e.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/tEeZNgWzTt/merge.gvcf.9a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9c.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9d.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.9e.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/CSPvpz0kTu/merge.gvcf.9a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9c.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9d.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.9e.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/tEeZNgWzTt/merge.gvcf.9a.bcf /tmp/tEeZNgWzTt/merge.gvcf.9b.bcf /tmp/tEeZNgWzTt/merge.gvcf.9c.bcf /tmp/tEeZNgWzTt/merge.gvcf.9d.bcf /tmp/tEeZNgWzTt/merge.gvcf.9e.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/CSPvpz0kTu/merge.gvcf.9a.bcf /tmp/CSPvpz0kTu/merge.gvcf.9b.bcf /tmp/CSPvpz0kTu/merge.gvcf.9c.bcf /tmp/CSPvpz0kTu/merge.gvcf.9d.bcf /tmp/CSPvpz0kTu/merge.gvcf.9e.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/tEeZNgWzTt/merge.gvcf.9a.bcf /tmp/tEeZNgWzTt/merge.gvcf.9b.bcf /tmp/tEeZNgWzTt/merge.gvcf.9c.bcf /tmp/tEeZNgWzTt/merge.gvcf.9d.bcf /tmp/tEeZNgWzTt/merge.gvcf.9e.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf /build/reproducible-path/bcftools-1.21/test/gvcf.fa -r 22:21-23 /tmp/CSPvpz0kTu/merge.gvcf.9a.bcf /tmp/CSPvpz0kTu/merge.gvcf.9b.bcf /tmp/CSPvpz0kTu/merge.gvcf.9c.bcf /tmp/CSPvpz0kTu/merge.gvcf.9d.bcf /tmp/CSPvpz0kTu/merge.gvcf.9e.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.gvcf.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.10.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.gvcf.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.10.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.gvcf.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.gvcf.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.gvcf.10.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.10.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.gvcf.10.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.10.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.gvcf.10.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.gvcf.10.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m none /tmp/tEeZNgWzTt/merge.gvcf.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.10.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m none /tmp/CSPvpz0kTu/merge.gvcf.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.10.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m none /tmp/tEeZNgWzTt/merge.gvcf.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m none /tmp/CSPvpz0kTu/merge.gvcf.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m none /tmp/tEeZNgWzTt/merge.gvcf.10.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.10.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m none /tmp/CSPvpz0kTu/merge.gvcf.10.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.10.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m none /tmp/tEeZNgWzTt/merge.gvcf.10.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m none /tmp/CSPvpz0kTu/merge.gvcf.10.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa /tmp/tEeZNgWzTt/merge.gvcf.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.10.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa /tmp/CSPvpz0kTu/merge.gvcf.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.10.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa /tmp/tEeZNgWzTt/merge.gvcf.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa /tmp/CSPvpz0kTu/merge.gvcf.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa /tmp/tEeZNgWzTt/merge.gvcf.10.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.10.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa /tmp/CSPvpz0kTu/merge.gvcf.10.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.10.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa /tmp/tEeZNgWzTt/merge.gvcf.10.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa /tmp/CSPvpz0kTu/merge.gvcf.10.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa -m none /tmp/tEeZNgWzTt/merge.gvcf.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.10.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa -m none /tmp/CSPvpz0kTu/merge.gvcf.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.10.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa -m none /tmp/tEeZNgWzTt/merge.gvcf.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa -m none /tmp/CSPvpz0kTu/merge.gvcf.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa -m none /tmp/tEeZNgWzTt/merge.gvcf.10.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.10.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa -m none /tmp/CSPvpz0kTu/merge.gvcf.10.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.10.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa -m none /tmp/tEeZNgWzTt/merge.gvcf.10.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -g /build/reproducible-path/bcftools-1.21/test/merge.gvcf.10.fa -m none /tmp/CSPvpz0kTu/merge.gvcf.10.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.noidx.a.vcf.gz /tmp/tEeZNgWzTt/merge.noidx.b.vcf.gz /tmp/tEeZNgWzTt/merge.noidx.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.noidx.a.vcf.gz /tmp/CSPvpz0kTu/merge.noidx.b.vcf.gz /tmp/CSPvpz0kTu/merge.noidx.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.noidx.a.vcf.gz /tmp/tEeZNgWzTt/merge.noidx.b.vcf.gz /tmp/tEeZNgWzTt/merge.noidx.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.noidx.a.vcf.gz /tmp/CSPvpz0kTu/merge.noidx.b.vcf.gz /tmp/CSPvpz0kTu/merge.noidx.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.noidx.a.bcf /tmp/tEeZNgWzTt/merge.noidx.b.bcf /tmp/tEeZNgWzTt/merge.noidx.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.noidx.a.bcf /tmp/CSPvpz0kTu/merge.noidx.b.bcf /tmp/CSPvpz0kTu/merge.noidx.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.noidx.a.bcf /tmp/tEeZNgWzTt/merge.noidx.b.bcf /tmp/tEeZNgWzTt/merge.noidx.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.noidx.a.bcf /tmp/CSPvpz0kTu/merge.noidx.b.bcf /tmp/CSPvpz0kTu/merge.noidx.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
@@ -1720,2327 +1756,2327 @@
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --no-index /tmp/tEeZNgWzTt/merge.noidx.a.bcf /tmp/tEeZNgWzTt/merge.noidx.b.bcf /tmp/tEeZNgWzTt/merge.noidx.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --no-index /tmp/CSPvpz0kTu/merge.noidx.a.bcf /tmp/CSPvpz0kTu/merge.noidx.b.bcf /tmp/CSPvpz0kTu/merge.noidx.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --no-index /tmp/tEeZNgWzTt/merge.noidx.a.bcf /tmp/tEeZNgWzTt/merge.noidx.b.bcf /tmp/tEeZNgWzTt/merge.noidx.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --no-index /tmp/CSPvpz0kTu/merge.noidx.a.bcf /tmp/CSPvpz0kTu/merge.noidx.b.bcf /tmp/CSPvpz0kTu/merge.noidx.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.8.a.vcf.gz /tmp/tEeZNgWzTt/merge.8.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.8.a.vcf.gz /tmp/CSPvpz0kTu/merge.8.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.8.a.vcf.gz /tmp/tEeZNgWzTt/merge.8.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.8.a.vcf.gz /tmp/CSPvpz0kTu/merge.8.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.8.a.bcf /tmp/tEeZNgWzTt/merge.8.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.8.a.bcf /tmp/CSPvpz0kTu/merge.8.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.8.a.bcf /tmp/tEeZNgWzTt/merge.8.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.8.a.bcf /tmp/CSPvpz0kTu/merge.8.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AN:sum,AC:sum /tmp/tEeZNgWzTt/merge.8.a.vcf.gz /tmp/tEeZNgWzTt/merge.8.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AN:sum,AC:sum /tmp/CSPvpz0kTu/merge.8.a.vcf.gz /tmp/CSPvpz0kTu/merge.8.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/tEeZNgWzTt/merge.8.a.vcf.gz /tmp/tEeZNgWzTt/merge.8.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/CSPvpz0kTu/merge.8.a.vcf.gz /tmp/CSPvpz0kTu/merge.8.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AN:sum,AC:sum /tmp/tEeZNgWzTt/merge.8.a.bcf /tmp/tEeZNgWzTt/merge.8.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AN:sum,AC:sum /tmp/CSPvpz0kTu/merge.8.a.bcf /tmp/CSPvpz0kTu/merge.8.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/tEeZNgWzTt/merge.8.a.bcf /tmp/tEeZNgWzTt/merge.8.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/CSPvpz0kTu/merge.8.a.bcf /tmp/CSPvpz0kTu/merge.8.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.9.a.vcf.gz /tmp/tEeZNgWzTt/merge.9.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.9.a.vcf.gz /tmp/CSPvpz0kTu/merge.9.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.9.a.vcf.gz /tmp/tEeZNgWzTt/merge.9.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.9.a.vcf.gz /tmp/CSPvpz0kTu/merge.9.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/tEeZNgWzTt/merge.9.a.bcf /tmp/tEeZNgWzTt/merge.9.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version /tmp/CSPvpz0kTu/merge.9.a.bcf /tmp/CSPvpz0kTu/merge.9.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/tEeZNgWzTt/merge.9.a.bcf /tmp/tEeZNgWzTt/merge.9.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob /tmp/CSPvpz0kTu/merge.9.a.bcf /tmp/CSPvpz0kTu/merge.9.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AN:sum,AC:sum /tmp/tEeZNgWzTt/merge.9.a.vcf.gz /tmp/tEeZNgWzTt/merge.9.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AN:sum,AC:sum /tmp/CSPvpz0kTu/merge.9.a.vcf.gz /tmp/CSPvpz0kTu/merge.9.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/tEeZNgWzTt/merge.9.a.vcf.gz /tmp/tEeZNgWzTt/merge.9.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/CSPvpz0kTu/merge.9.a.vcf.gz /tmp/CSPvpz0kTu/merge.9.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AN:sum,AC:sum /tmp/tEeZNgWzTt/merge.9.a.bcf /tmp/tEeZNgWzTt/merge.9.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -i AN:sum,AC:sum /tmp/CSPvpz0kTu/merge.9.a.bcf /tmp/CSPvpz0kTu/merge.9.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/tEeZNgWzTt/merge.9.a.bcf /tmp/tEeZNgWzTt/merge.9.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -i AN:sum,AC:sum /tmp/CSPvpz0kTu/merge.9.a.bcf /tmp/CSPvpz0kTu/merge.9.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m none /tmp/tEeZNgWzTt/merge.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.10.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m none /tmp/CSPvpz0kTu/merge.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.10.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m none /tmp/tEeZNgWzTt/merge.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m none /tmp/CSPvpz0kTu/merge.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m none /tmp/tEeZNgWzTt/merge.10.a.bcf /tmp/tEeZNgWzTt/merge.10.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m none /tmp/CSPvpz0kTu/merge.10.a.bcf /tmp/CSPvpz0kTu/merge.10.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m none /tmp/tEeZNgWzTt/merge.10.a.bcf /tmp/tEeZNgWzTt/merge.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m none /tmp/CSPvpz0kTu/merge.10.a.bcf /tmp/CSPvpz0kTu/merge.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m both /tmp/tEeZNgWzTt/merge.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.10.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m both /tmp/CSPvpz0kTu/merge.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.10.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m both /tmp/tEeZNgWzTt/merge.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m both /tmp/CSPvpz0kTu/merge.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m both /tmp/tEeZNgWzTt/merge.10.a.bcf /tmp/tEeZNgWzTt/merge.10.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m both /tmp/CSPvpz0kTu/merge.10.a.bcf /tmp/CSPvpz0kTu/merge.10.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m both /tmp/tEeZNgWzTt/merge.10.a.bcf /tmp/tEeZNgWzTt/merge.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m both /tmp/CSPvpz0kTu/merge.10.a.bcf /tmp/CSPvpz0kTu/merge.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m snp-ins-del /tmp/tEeZNgWzTt/merge.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.10.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m snp-ins-del /tmp/CSPvpz0kTu/merge.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.10.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m snp-ins-del /tmp/tEeZNgWzTt/merge.10.a.vcf.gz /tmp/tEeZNgWzTt/merge.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m snp-ins-del /tmp/CSPvpz0kTu/merge.10.a.vcf.gz /tmp/CSPvpz0kTu/merge.10.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m snp-ins-del /tmp/tEeZNgWzTt/merge.10.a.bcf /tmp/tEeZNgWzTt/merge.10.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -m snp-ins-del /tmp/CSPvpz0kTu/merge.10.a.bcf /tmp/CSPvpz0kTu/merge.10.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m snp-ins-del /tmp/tEeZNgWzTt/merge.10.a.bcf /tmp/tEeZNgWzTt/merge.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob -m snp-ins-del /tmp/CSPvpz0kTu/merge.10.a.bcf /tmp/CSPvpz0kTu/merge.10.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.mrules.1.a.vcf.gz /tmp/tEeZNgWzTt/merge.mrules.1.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.mrules.1.a.vcf.gz /tmp/CSPvpz0kTu/merge.mrules.1.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.mrules.1.a.vcf.gz /tmp/tEeZNgWzTt/merge.mrules.1.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.mrules.1.a.vcf.gz /tmp/CSPvpz0kTu/merge.mrules.1.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.mrules.1.a.bcf /tmp/tEeZNgWzTt/merge.mrules.1.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.mrules.1.a.bcf /tmp/CSPvpz0kTu/merge.mrules.1.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.mrules.1.a.bcf /tmp/tEeZNgWzTt/merge.mrules.1.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.mrules.1.a.bcf /tmp/CSPvpz0kTu/merge.mrules.1.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/tEeZNgWzTt/merge.mrules.1.a.vcf.gz /tmp/tEeZNgWzTt/merge.mrules.1.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/CSPvpz0kTu/merge.mrules.1.a.vcf.gz /tmp/CSPvpz0kTu/merge.mrules.1.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/tEeZNgWzTt/merge.mrules.1.a.vcf.gz /tmp/tEeZNgWzTt/merge.mrules.1.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/CSPvpz0kTu/merge.mrules.1.a.vcf.gz /tmp/CSPvpz0kTu/merge.mrules.1.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/tEeZNgWzTt/merge.mrules.1.a.bcf /tmp/tEeZNgWzTt/merge.mrules.1.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - -M AD:.,PL:. /tmp/CSPvpz0kTu/merge.mrules.1.a.bcf /tmp/CSPvpz0kTu/merge.mrules.1.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/tEeZNgWzTt/merge.mrules.1.a.bcf /tmp/tEeZNgWzTt/merge.mrules.1.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - -M AD:.,PL:. /tmp/CSPvpz0kTu/merge.mrules.1.a.bcf /tmp/CSPvpz0kTu/merge.mrules.1.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.5.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.5.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.5.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.5.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.5.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.5.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.5.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.5.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.5.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.5.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.5.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.5.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.5.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.5.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.5.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.5.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - --merge none /tmp/tEeZNgWzTt/merge.gvcf.5.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.5.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - --merge none /tmp/CSPvpz0kTu/merge.gvcf.5.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.5.b.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/tEeZNgWzTt/merge.gvcf.5.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.5.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/CSPvpz0kTu/merge.gvcf.5.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.5.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - --merge none /tmp/tEeZNgWzTt/merge.gvcf.5.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.5.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - --merge none /tmp/CSPvpz0kTu/merge.gvcf.5.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.5.b.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/tEeZNgWzTt/merge.gvcf.5.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.5.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - --merge none /tmp/CSPvpz0kTu/merge.gvcf.5.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.5.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.11.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.11.b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.11.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.11.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.11.b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.11.c.vcf.gz
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.11.a.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.11.b.vcf.gz /tmp/tEeZNgWzTt/merge.gvcf.11.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.11.a.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.11.b.vcf.gz /tmp/CSPvpz0kTu/merge.gvcf.11.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.11.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.11.b.bcf /tmp/tEeZNgWzTt/merge.gvcf.11.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.11.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.11.b.bcf /tmp/CSPvpz0kTu/merge.gvcf.11.c.bcf
.. ok
test_vcf_merge:
- /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/tEeZNgWzTt/merge.gvcf.11.a.bcf /tmp/tEeZNgWzTt/merge.gvcf.11.b.bcf /tmp/tEeZNgWzTt/merge.gvcf.11.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools merge --no-version -Ob --gvcf - /tmp/CSPvpz0kTu/merge.gvcf.11.a.bcf /tmp/CSPvpz0kTu/merge.gvcf.11.b.bcf /tmp/CSPvpz0kTu/merge.gvcf.11.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version | grep -v ^##bcftools_
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"' /tmp/tEeZNgWzTt/query.string.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"' /tmp/CSPvpz0kTu/query.string.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.string.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.string.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided,_conflicting_interpretations"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"' /tmp/tEeZNgWzTt/query.string.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"' /tmp/CSPvpz0kTu/query.string.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.string.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.string.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" || CLNREVSTAT="_conflicting_interpretations"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"' /tmp/tEeZNgWzTt/query.string.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"' /tmp/CSPvpz0kTu/query.string.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.string.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.string.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%CLNREVSTAT\n' -i'CLNREVSTAT="criteria_provided" && CLNREVSTAT="_conflicting_interpretations"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/build/reproducible-path/bcftools-1.21/test/query.string.2.1.txt' /tmp/tEeZNgWzTt/query.string.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/build/reproducible-path/bcftools-1.21/test/query.string.2.1.txt' /tmp/CSPvpz0kTu/query.string.2.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.string.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/build/reproducible-path/bcftools-1.21/test/query.string.2.1.txt'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.string.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%INFO/STR\n' -i'INFO/STR=@/build/reproducible-path/bcftools-1.21/test/query.string.2.1.txt'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/build/reproducible-path/bcftools-1.21/test/query.string.2.2.txt' /tmp/tEeZNgWzTt/query.string.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/build/reproducible-path/bcftools-1.21/test/query.string.2.2.txt' /tmp/CSPvpz0kTu/query.string.2.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.string.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/build/reproducible-path/bcftools-1.21/test/query.string.2.2.txt'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.string.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS[\t%STR]\n' -i'FMT/STR=@/build/reproducible-path/bcftools-1.21/test/query.string.2.2.txt'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%RSX\t%VKX\n' /tmp/tEeZNgWzTt/query.variantkey.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%RSX\t%VKX\n' /tmp/CSPvpz0kTu/query.variantkey.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.variantkey.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%RSX\t%VKX\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.variantkey.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%RSX\t%VKX\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%XRI\n' -i'XRI[*]>1111' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%XRI\n' -i'XRI[*]>1111' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XRI\n' -i'XRI[*]>1111'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XRI\n' -i'XRI[*]>1111'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%XRF\n' -i'XRF[*]=2e6' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%XRF\n' -i'XRF[*]=2e6' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XRF\n' -i'XRF[*]=2e6'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XRF\n' -i'XRF[*]=2e6'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[2]~"H"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[2]~"H"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[2]~"H"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[2]~"H"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[3]!~"H" && XGS!="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[*]~"H"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[*]~"H"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[*]~"H"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XGS\n' -i'XGS[*]~"H"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT[*]~"CT"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[*:0]))=10'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/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/tEeZNgWzTt/view.vectors.vcf.gz
+ /build/reproducible-path/bcftools-1.21/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/CSPvpz0kTu/view.vectors.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.vectors.vcf.gz | /build/reproducible-path/bcftools-1.21/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'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.vectors.vcf.gz | /build/reproducible-path/bcftools-1.21/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:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"' /tmp/tEeZNgWzTt/query.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"' /tmp/CSPvpz0kTu/query.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT ="1"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"' /tmp/tEeZNgWzTt/query.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"' /tmp/CSPvpz0kTu/query.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -i'GT!="1"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"' /tmp/tEeZNgWzTt/query.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"' /tmp/CSPvpz0kTu/query.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT ="1"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"' /tmp/tEeZNgWzTt/query.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"' /tmp/CSPvpz0kTu/query.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %GT\n]' -e'GT!="1"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n' /tmp/tEeZNgWzTt/query.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n' /tmp/CSPvpz0kTu/query.2.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'IINT="."' -f'%POS %IINT\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'IINT="."' -f'%POS %IINT\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'IINT="."' -f'%POS %IINT\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'IINT="."' -f'%POS %IINT\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'IINT!="."' -f'%POS %IINT\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'IINT!="."' -f'%POS %IINT\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'IINT!="."' -f'%POS %IINT\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'IINT!="."' -f'%POS %IINT\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -e'IINT!="."' -f'%POS %IINT\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -e'IINT!="."' -f'%POS %IINT\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'IINT!="."' -f'%POS %IINT\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'IINT!="."' -f'%POS %IINT\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -e'IINT="."' -f'%POS %IINT\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -e'IINT="."' -f'%POS %IINT\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'IINT="."' -f'%POS %IINT\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'IINT="."' -f'%POS %IINT\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'IFLT="."' -f'%POS %IFLT\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'IFLT="."' -f'%POS %IFLT\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'IFLT="."' -f'%POS %IFLT\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'IFLT="."' -f'%POS %IFLT\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -e'IFLT="."' -f'%POS %IFLT\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -e'IFLT="."' -f'%POS %IFLT\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'IFLT="."' -f'%POS %IFLT\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'IFLT="."' -f'%POS %IFLT\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'ISTR="."' -f'%POS %ISTR\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'ISTR="."' -f'%POS %ISTR\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'ISTR="."' -f'%POS %ISTR\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'ISTR="."' -f'%POS %ISTR\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -e'ISTR="."' -f'%POS %ISTR\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -e'ISTR="."' -f'%POS %ISTR\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'ISTR="."' -f'%POS %ISTR\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'ISTR="."' -f'%POS %ISTR\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="q11"' -f'%POS %ISTR\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n' /tmp/tEeZNgWzTt/filter.11.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n' /tmp/CSPvpz0kTu/filter.11.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A"' -f'%POS %FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n' /tmp/tEeZNgWzTt/filter.11.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n' /tmp/CSPvpz0kTu/filter.11.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!="A"' -f'%POS %FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n' /tmp/tEeZNgWzTt/filter.11.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n' /tmp/CSPvpz0kTu/filter.11.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A"' -f'%POS %FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n' /tmp/tEeZNgWzTt/filter.11.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n' /tmp/CSPvpz0kTu/filter.11.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!~"A"' -f'%POS %FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%LINE' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%LINE' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%LINE'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%LINE'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"' /tmp/tEeZNgWzTt/query.filter-type.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"' /tmp/CSPvpz0kTu/query.filter-type.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type="snp"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"' /tmp/tEeZNgWzTt/query.filter-type.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"' /tmp/CSPvpz0kTu/query.filter-type.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type~"snp"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"' /tmp/tEeZNgWzTt/query.filter-type.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"' /tmp/CSPvpz0kTu/query.filter-type.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!="snp"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"' /tmp/tEeZNgWzTt/query.filter-type.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"' /tmp/CSPvpz0kTu/query.filter-type.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'type!~"snp"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"' /tmp/tEeZNgWzTt/query.filter-type.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"' /tmp/CSPvpz0kTu/query.filter-type.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter-type.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\n' -i'INFO/TYPE="xxx"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/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/tEeZNgWzTt/filter-missing-floats.vcf.gz
+ /build/reproducible-path/bcftools-1.21/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/CSPvpz0kTu/filter-missing-floats.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter-missing-floats.vcf.gz | /build/reproducible-path/bcftools-1.21/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'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter-missing-floats.vcf.gz | /build/reproducible-path/bcftools-1.21/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:
- /build/reproducible-path/bcftools-1.21/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/tEeZNgWzTt/filter-missing-floats.vcf.gz
+ /build/reproducible-path/bcftools-1.21/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/CSPvpz0kTu/filter-missing-floats.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter-missing-floats.vcf.gz | /build/reproducible-path/bcftools-1.21/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'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter-missing-floats.vcf.gz | /build/reproducible-path/bcftools-1.21/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:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n' /tmp/tEeZNgWzTt/missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n' /tmp/CSPvpz0kTu/missing.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FMT/FINT!="."' -f'[\t%FINT]\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"' /tmp/tEeZNgWzTt/query.filter.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"' /tmp/CSPvpz0kTu/query.filter.2.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT]\n' -i'GT~"0/[1-9]" || GT~"[1-9]/0"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:1-2,4]="EE"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'"EE"=FGS[*:1-2,4]'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]=6'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'6=FGI[*:1-2,5]'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGF\n]\n' -i'FGF[*:1-3,4]=5e-5'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="EE"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGS\n]\n' -i'FGS[*:4]!="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %FGI\n]\n' -i'FGI[*:1-2,5]!="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2' /tmp/tEeZNgWzTt/filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2' /tmp/CSPvpz0kTu/filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP=2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."' /tmp/tEeZNgWzTt/filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."' /tmp/CSPvpz0kTu/filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=1 | FMT/DP="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 | FMT/DP="."' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 | FMT/DP="."' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 | FMT/DP="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 | FMT/DP="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP=19 || FMT/DP="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]=19'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP\n]\n' -i'FMT/DP[0]!=19'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 & FMT/GQ=589' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 & FMT/GQ=589' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 & FMT/GQ=589'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 & FMT/GQ=589'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.filter.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %DP %GQ\n]\n' -i'FMT/DP=19 && FMT/GQ=1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"' /tmp/tEeZNgWzTt/query.filter.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"' /tmp/CSPvpz0kTu/query.filter.3.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" && GT~"2"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" & GT~"2"' /tmp/tEeZNgWzTt/query.filter.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" & GT~"2"' /tmp/CSPvpz0kTu/query.filter.3.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" & GT~"2"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[\t%GT\n]\n' -i'GT~"1" & GT~"2"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1' /tmp/tEeZNgWzTt/query.filter.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1' /tmp/CSPvpz0kTu/query.filter.3.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS[\t%GT]\n' -i'COUNT(GT="het")=1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]\n' -i'AD[:0]+AD[:1] > 12' /tmp/tEeZNgWzTt/filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]\n' -i'AD[:0]+AD[:1] > 12' /tmp/CSPvpz0kTu/filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]\n' -i'AD[:0]+AD[:1] > 12'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]\n' -i'AD[:0]+AD[:1] > 12'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"' /tmp/tEeZNgWzTt/query.filter.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"' /tmp/CSPvpz0kTu/query.filter.4.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.4.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.4.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT[\t%GT]\n' -e'TYPE!="snp" || ALT="*"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i 'ID=@/build/reproducible-path/bcftools-1.21/test/query.56.out' /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i 'ID=@/build/reproducible-path/bcftools-1.21/test/query.56.out' /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i 'ID=@/build/reproducible-path/bcftools-1.21/test/query.56.out'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i 'ID=@/build/reproducible-path/bcftools-1.21/test/query.56.out'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01' /tmp/tEeZNgWzTt/query.filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01' /tmp/CSPvpz0kTu/query.filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD)>0.01'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD[:0],FMT/AD[:1])>0.01' /tmp/tEeZNgWzTt/query.filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD[:0],FMT/AD[:1])>0.01' /tmp/CSPvpz0kTu/query.filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\t%AD\n]' -i'GT="het" & binom(FMT/AD[:0],FMT/AD[:1])>0.01'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/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:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01' /tmp/tEeZNgWzTt/query.filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01' /tmp/CSPvpz0kTu/query.filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%AD\n' -i'binom(INFO/AD[0],INFO/AD[1])>0.01'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10' /tmp/tEeZNgWzTt/query.filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10' /tmp/CSPvpz0kTu/query.filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[GT]==10'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210' /tmp/tEeZNgWzTt/query.filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210' /tmp/CSPvpz0kTu/query.filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'sSUM(FMT/AD[GT])==210'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30' /tmp/tEeZNgWzTt/query.filter.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30' /tmp/CSPvpz0kTu/query.filter.5.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.5.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%GT\t%SAMPLE\t%AD\n]' -i'FMT/AD[0:GT]==30'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2' /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2' /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TF[:GT]==1 && FMT/TF[:GT]==2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2' /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2' /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TI[:GT]==1 && FMT/TF[:GT]==2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"' /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"' /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TS[:GT]=="BB" && FMT/TS[:GT]=="CC"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B" && FMT/TC[:GT]=="C"' /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B" && FMT/TC[:GT]=="C"' /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B" && FMT/TC[:GT]=="C"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TC %TS %TI %TF\n]' -i'FMT/TC[:GT]=="B" && FMT/TC[:GT]=="C"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."' /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."' /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.gtidx.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%GT %TI\n]' -i'FMT/TI[:GT]=="."'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS\n' -i'CHROM="4"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)' /tmp/tEeZNgWzTt/query.negative.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)' /tmp/CSPvpz0kTu/query.negative.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.negative.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.negative.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAG1\n' -i'(TAG1>=-129 && TAG1<=-120) || (TAG1>=-32769 && TAG1<=-32760)'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)' /tmp/tEeZNgWzTt/query.negative.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)' /tmp/CSPvpz0kTu/query.negative.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.negative.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.negative.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAGV1\n' -i'(TAGV1>=-129 && TAGV1<=-120) || (TAGV1>=-32769 && TAGV1<=-32760)'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)' /tmp/tEeZNgWzTt/query.negative.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)' /tmp/CSPvpz0kTu/query.negative.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.negative.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.negative.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAG2\n' -i'(TAG2>=-129 && TAG2<=-120) || (TAG2>=-32769 && TAG2<=-32760)'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)' /tmp/tEeZNgWzTt/query.negative.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)' /tmp/CSPvpz0kTu/query.negative.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.negative.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.negative.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%TAGV2\n' -i'(TAGV2>=-129 && TAGV2<=-120) || (TAGV2>=-32769 && TAGV2<=-32760)'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GQ\n]' -i'N_PASS(GQ<20)==1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1' /tmp/tEeZNgWzTt/query.filter.11.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1' /tmp/CSPvpz0kTu/query.filter.11.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")==1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1' /tmp/tEeZNgWzTt/query.filter.11.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1' /tmp/CSPvpz0kTu/query.filter.11.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -i'N_PASS(GT="alt")!=1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1' /tmp/tEeZNgWzTt/query.filter.11.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1' /tmp/CSPvpz0kTu/query.filter.11.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")==1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1' /tmp/tEeZNgWzTt/query.filter.11.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1' /tmp/CSPvpz0kTu/query.filter.11.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%SAMPLE\t%GT\n]' -e'N_PASS(GT="alt")!=1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\t%INFO\t%FORMAT\n' -s D,C
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904' /tmp/tEeZNgWzTt/query.filter.6.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904' /tmp/CSPvpz0kTu/query.filter.6.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.6.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.6.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\n' -i'POS==16777217 || POS==33554432 || POS=118673904'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6' /tmp/tEeZNgWzTt/query.filter.7.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6' /tmp/CSPvpz0kTu/query.filter.7.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(II)==6'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7' /tmp/tEeZNgWzTt/query.filter.7.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7' /tmp/CSPvpz0kTu/query.filter.7.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'sum(FORMAT/FI)==7'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2' /tmp/tEeZNgWzTt/query.filter.7.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2' /tmp/CSPvpz0kTu/query.filter.7.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(II)==2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75' /tmp/tEeZNgWzTt/query.filter.7.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75' /tmp/CSPvpz0kTu/query.filter.7.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'avg(FORMAT/FI)==1.75'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2' /tmp/tEeZNgWzTt/query.filter.7.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2' /tmp/CSPvpz0kTu/query.filter.7.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(II)==2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75' /tmp/tEeZNgWzTt/query.filter.7.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75' /tmp/CSPvpz0kTu/query.filter.7.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'mean(FORMAT/FI)==1.75'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2' /tmp/tEeZNgWzTt/query.filter.7.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2' /tmp/CSPvpz0kTu/query.filter.7.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(II)==2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5' /tmp/tEeZNgWzTt/query.filter.7.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5' /tmp/CSPvpz0kTu/query.filter.7.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.7.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%II[\t%FI]\n' -i'median(FORMAT/FI)==1.5'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1' /tmp/tEeZNgWzTt/query.filter.8.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1' /tmp/CSPvpz0kTu/query.filter.8.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.8.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.8.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'%ILEN==1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1' /tmp/tEeZNgWzTt/query.filter.8.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1' /tmp/CSPvpz0kTu/query.filter.8.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.8.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.8.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%ILEN\n' -i'ILEN==1'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]' /tmp/tEeZNgWzTt/query.filter.9.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]' /tmp/CSPvpz0kTu/query.filter.9.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.9.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.9.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]' -i'FMT/AD[:0] < FMT/AD[:1]'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]' /tmp/tEeZNgWzTt/query.filter.9.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]' /tmp/CSPvpz0kTu/query.filter.9.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.9.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.9.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS %SAMPLE %AD\n]' -i'FMT/AD[:0] > FMT/AD[:1]'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5' /tmp/tEeZNgWzTt/query.filter.13.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5' /tmp/CSPvpz0kTu/query.filter.13.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.13.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.13.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[ %AD\n]' -i'AD[:1] / sum(AD[*]) > 0.5'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2' /tmp/tEeZNgWzTt/query.filter.10.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2' /tmp/CSPvpz0kTu/query.filter.10.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.10.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.10.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %NUM_TAG\n' -i'COUNT(INFO/NUM_TAG)=2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2' /tmp/tEeZNgWzTt/query.filter.10.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2' /tmp/CSPvpz0kTu/query.filter.10.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.10.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.10.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS %STR_TAG\n' -i'COUNT(INFO/STR_TAG)=2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n' /tmp/tEeZNgWzTt/query.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n' /tmp/CSPvpz0kTu/query.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS\t%N_PASS(GT="alt" & GQ>110)\t[\t%GT]\t[\t%GQ]\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0 /tmp/tEeZNgWzTt/query.filter.12.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0 /tmp/CSPvpz0kTu/query.filter.12.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 1,3,0
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3 /tmp/tEeZNgWzTt/query.filter.12.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3 /tmp/CSPvpz0kTu/query.filter.12.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f '%CHROM:%POS[\t%SAMPLE=%GT]\n' -e 'GT="mis"' -s 0,1,3
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S /build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt /tmp/tEeZNgWzTt/query.smpl.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S /build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt /tmp/CSPvpz0kTu/query.smpl.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S /build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S /build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -l -S /build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt /tmp/tEeZNgWzTt/query.smpl.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -l -S /build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt /tmp/CSPvpz0kTu/query.smpl.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -l -S /build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -l -S /build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S ^/build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt /tmp/tEeZNgWzTt/query.smpl.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S ^/build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt /tmp/CSPvpz0kTu/query.smpl.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S ^/build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S ^/build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -l -S ^/build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt /tmp/tEeZNgWzTt/query.smpl.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -l -S ^/build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt /tmp/CSPvpz0kTu/query.smpl.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -l -S ^/build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -l -S ^/build/reproducible-path/bcftools-1.21/test/query.smpl.11.txt
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S /build/reproducible-path/bcftools-1.21/test/query.smpl.txt /tmp/tEeZNgWzTt/query.smpl.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S /build/reproducible-path/bcftools-1.21/test/query.smpl.txt /tmp/CSPvpz0kTu/query.smpl.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S /build/reproducible-path/bcftools-1.21/test/query.smpl.txt
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f "[%SAMPLE %GT\n]" -S /build/reproducible-path/bcftools-1.21/test/query.smpl.txt
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -l -S /build/reproducible-path/bcftools-1.21/test/query.smpl.txt /tmp/tEeZNgWzTt/query.smpl.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -l -S /build/reproducible-path/bcftools-1.21/test/query.smpl.txt /tmp/CSPvpz0kTu/query.smpl.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -l -S /build/reproducible-path/bcftools-1.21/test/query.smpl.txt
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.smpl.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -l -S /build/reproducible-path/bcftools-1.21/test/query.smpl.txt
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID~"s12"' /tmp/tEeZNgWzTt/query.filter.id.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID~"s12"' /tmp/CSPvpz0kTu/query.filter.id.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID~"s12"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID~"s12"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID="rs123"' /tmp/tEeZNgWzTt/query.filter.id.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID="rs123"' /tmp/CSPvpz0kTu/query.filter.id.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID="rs123"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID="rs123"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID="abc"' /tmp/tEeZNgWzTt/query.filter.id.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID="abc"' /tmp/CSPvpz0kTu/query.filter.id.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID="abc"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID="abc"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID=@/build/reproducible-path/bcftools-1.21/test/query.filter.id.3.txt' /tmp/tEeZNgWzTt/query.filter.id.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID=@/build/reproducible-path/bcftools-1.21/test/query.filter.id.3.txt' /tmp/CSPvpz0kTu/query.filter.id.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID=@/build/reproducible-path/bcftools-1.21/test/query.filter.id.3.txt'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID=@/build/reproducible-path/bcftools-1.21/test/query.filter.id.3.txt'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID!="abc"' /tmp/tEeZNgWzTt/query.filter.id.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID!="abc"' /tmp/CSPvpz0kTu/query.filter.id.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID!="abc"'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID!="abc"'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID!=@/build/reproducible-path/bcftools-1.21/test/query.filter.id.3.txt' /tmp/tEeZNgWzTt/query.filter.id.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID!=@/build/reproducible-path/bcftools-1.21/test/query.filter.id.3.txt' /tmp/CSPvpz0kTu/query.filter.id.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID!=@/build/reproducible-path/bcftools-1.21/test/query.filter.id.3.txt'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%ID\n' -i'ID!=@/build/reproducible-path/bcftools-1.21/test/query.filter.id.3.txt'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A"' -f'%FILTER\n' /tmp/tEeZNgWzTt/filter.12.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A"' -f'%FILTER\n' /tmp/CSPvpz0kTu/filter.12.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A"' -f'%FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A"' -f'%FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A"' -f'%FILTER\n' /tmp/tEeZNgWzTt/filter.12.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A"' -f'%FILTER\n' /tmp/CSPvpz0kTu/filter.12.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A"' -f'%FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A"' -f'%FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A;B"' -f'%FILTER\n' /tmp/tEeZNgWzTt/filter.12.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A;B"' -f'%FILTER\n' /tmp/CSPvpz0kTu/filter.12.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A;B"' -f'%FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER="A;B"' -f'%FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n' /tmp/tEeZNgWzTt/filter.12.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n' /tmp/CSPvpz0kTu/filter.12.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!="A;B"' -f'%FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n' /tmp/tEeZNgWzTt/filter.12.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n' /tmp/CSPvpz0kTu/filter.12.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER~"A;B"' -f'%FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n' /tmp/tEeZNgWzTt/filter.12.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n' /tmp/CSPvpz0kTu/filter.12.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.12.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'FILTER!~"A;B"' -f'%FILTER\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'DP%10==2' -f'[ %DP]\n' /tmp/tEeZNgWzTt/filter.10.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'DP%10==2' -f'[ %DP]\n' /tmp/CSPvpz0kTu/filter.10.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.10.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'DP%10==2' -f'[ %DP]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.10.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'DP%10==2' -f'[ %DP]\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n' /tmp/tEeZNgWzTt/filter.13.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n' /tmp/CSPvpz0kTu/filter.13.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/filter.13.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/filter.13.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -i'REF="N"' -f'%CHROM %POS %REF %ALT %QUAL\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -H -f'[%CHROM %POS %SAMPLE %DP %GT\n]' /tmp/tEeZNgWzTt/query.header.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -H -f'[%CHROM %POS %SAMPLE %DP %GT\n]' /tmp/CSPvpz0kTu/query.header.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'[%CHROM %POS %SAMPLE %DP %GT\n]'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'[%CHROM %POS %SAMPLE %DP %GT\n]'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -H -f'[%CHROM %POS %SAMPLE %DP %GT\t]\n' /tmp/tEeZNgWzTt/query.header.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -H -f'[%CHROM %POS %SAMPLE %DP %GT\t]\n' /tmp/CSPvpz0kTu/query.header.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'[%CHROM %POS %SAMPLE %DP %GT\t]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'[%CHROM %POS %SAMPLE %DP %GT\t]\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n' /tmp/tEeZNgWzTt/query.header.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n' /tmp/CSPvpz0kTu/query.header.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]' /tmp/tEeZNgWzTt/query.header.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]' /tmp/CSPvpz0kTu/query.header.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE %DP %GT]'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n' /tmp/tEeZNgWzTt/query.header.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n' /tmp/CSPvpz0kTu/query.header.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]\n'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/tEeZNgWzTt/query.header.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/CSPvpz0kTu/query.header.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -H -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/tEeZNgWzTt/query.header.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]' /tmp/CSPvpz0kTu/query.header.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.header.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -HH -f'%CHROM %POS[ %SAMPLE][ %DP][ %GT]'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2' /tmp/tEeZNgWzTt/query.filter-or.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2' /tmp/CSPvpz0kTu/query.filter-or.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter-or.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter-or.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 || DP=2'
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 | DP=2' /tmp/tEeZNgWzTt/query.filter-or.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 | DP=2' /tmp/CSPvpz0kTu/query.filter-or.vcf.gz
.. ok
test_vcf_query:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/query.filter-or.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 | DP=2'
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/query.filter-or.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%SAMPLE %DP\n]' -i'DP=1 | DP=2'
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.sort.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.sort.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.sort.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.sort.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - -S lex /tmp/tEeZNgWzTt/norm.sort.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - -S lex /tmp/CSPvpz0kTu/norm.sort.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - -S lex /tmp/tEeZNgWzTt/norm.sort.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - -S lex /tmp/CSPvpz0kTu/norm.sort.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/tEeZNgWzTt/norm.join-missing-ploidy.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/CSPvpz0kTu/norm.join-missing-ploidy.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/tEeZNgWzTt/norm.join-missing-ploidy.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/CSPvpz0kTu/norm.join-missing-ploidy.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps . /tmp/tEeZNgWzTt/norm.split.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps . /tmp/CSPvpz0kTu/norm.split.5.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps . /tmp/tEeZNgWzTt/norm.split.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps . /tmp/CSPvpz0kTu/norm.split.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version /tmp/tEeZNgWzTt/norm.symbolic.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.3.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version /tmp/CSPvpz0kTu/norm.symbolic.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.3.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version /tmp/tEeZNgWzTt/norm.symbolic.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version /tmp/CSPvpz0kTu/norm.symbolic.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -cx /tmp/tEeZNgWzTt/norm.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -cx /tmp/CSPvpz0kTu/norm.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -cx /tmp/tEeZNgWzTt/norm.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -cx /tmp/CSPvpz0kTu/norm.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/tEeZNgWzTt/norm.split.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/CSPvpz0kTu/norm.split.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/tEeZNgWzTt/norm.split.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/CSPvpz0kTu/norm.split.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/tEeZNgWzTt/norm.split.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/CSPvpz0kTu/norm.split.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/tEeZNgWzTt/norm.split.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/CSPvpz0kTu/norm.split.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- --force /tmp/tEeZNgWzTt/norm.split.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- --force /tmp/CSPvpz0kTu/norm.split.3.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- --force /tmp/tEeZNgWzTt/norm.split.3.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- --force /tmp/CSPvpz0kTu/norm.split.3.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/tEeZNgWzTt/norm.split.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/CSPvpz0kTu/norm.split.4.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/tEeZNgWzTt/norm.split.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/CSPvpz0kTu/norm.split.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- --keep-sum AD /tmp/tEeZNgWzTt/norm.split.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- --keep-sum AD /tmp/CSPvpz0kTu/norm.split.4.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- --keep-sum AD /tmp/tEeZNgWzTt/norm.split.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- --keep-sum AD /tmp/CSPvpz0kTu/norm.split.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/tEeZNgWzTt/norm.split.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/CSPvpz0kTu/norm.split.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/tEeZNgWzTt/norm.split.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m- /tmp/CSPvpz0kTu/norm.split.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/tEeZNgWzTt/norm.merge.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/CSPvpz0kTu/norm.merge.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/tEeZNgWzTt/norm.merge.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/CSPvpz0kTu/norm.merge.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/tEeZNgWzTt/norm.merge.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/CSPvpz0kTu/norm.merge.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/tEeZNgWzTt/norm.merge.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/CSPvpz0kTu/norm.merge.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/tEeZNgWzTt/norm.merge.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/CSPvpz0kTu/norm.merge.3.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/tEeZNgWzTt/norm.merge.3.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ /tmp/CSPvpz0kTu/norm.merge.3.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ -s /tmp/tEeZNgWzTt/norm.merge.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ -s /tmp/CSPvpz0kTu/norm.merge.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ -s /tmp/tEeZNgWzTt/norm.merge.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m+ -s /tmp/CSPvpz0kTu/norm.merge.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -Nc s /tmp/tEeZNgWzTt/norm.setref.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -Nc s /tmp/CSPvpz0kTu/norm.setref.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -Nc s /tmp/tEeZNgWzTt/norm.setref.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -Nc s /tmp/CSPvpz0kTu/norm.setref.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version /tmp/tEeZNgWzTt/norm.telomere.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version /tmp/CSPvpz0kTu/norm.telomere.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version /tmp/tEeZNgWzTt/norm.telomere.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version /tmp/CSPvpz0kTu/norm.telomere.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d snps /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d snps /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d snps /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d snps /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d indels /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d indels /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d indels /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d indels /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d both /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d both /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d both /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d both /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d all /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d all /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d all /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d all /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d none /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d none /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d none /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d none /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/tEeZNgWzTt/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/CSPvpz0kTu/norm.rmdup.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d none /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d none /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d none /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d none /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d indels /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d indels /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d indels /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d indels /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d any /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d any /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d any /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d any /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d both /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d both /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d both /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d both /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d snps /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d snps /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d snps /tmp/tEeZNgWzTt/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d snps /tmp/CSPvpz0kTu/norm.rmdup.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/tEeZNgWzTt/norm.rmdup.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.rmdup.3.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/CSPvpz0kTu/norm.rmdup.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.rmdup.3.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/tEeZNgWzTt/norm.rmdup.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.rmdup.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d exact /tmp/CSPvpz0kTu/norm.rmdup.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.rmdup.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d all /tmp/tEeZNgWzTt/norm.rmdup.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.rmdup.3.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d all /tmp/CSPvpz0kTu/norm.rmdup.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.rmdup.3.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d all /tmp/tEeZNgWzTt/norm.rmdup.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.rmdup.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -d all /tmp/CSPvpz0kTu/norm.rmdup.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.rmdup.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s -a /tmp/tEeZNgWzTt/norm.2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.2.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s -a /tmp/CSPvpz0kTu/norm.2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.2.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s -a /tmp/tEeZNgWzTt/norm.2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.2.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s -a /tmp/CSPvpz0kTu/norm.2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.2.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s /tmp/tEeZNgWzTt/norm.iupac.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.iupac.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s /tmp/CSPvpz0kTu/norm.iupac.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.iupac.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s /tmp/tEeZNgWzTt/norm.iupac.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.iupac.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s /tmp/CSPvpz0kTu/norm.iupac.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.iupac.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s /tmp/tEeZNgWzTt/norm.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.3.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s /tmp/CSPvpz0kTu/norm.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.3.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s /tmp/tEeZNgWzTt/norm.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s /tmp/CSPvpz0kTu/norm.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s -i'alt="N"' /tmp/tEeZNgWzTt/norm.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.3.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s -i'alt="N"' /tmp/CSPvpz0kTu/norm.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.3.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s -i'alt="N"' /tmp/tEeZNgWzTt/norm.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -c s -i'alt="N"' /tmp/CSPvpz0kTu/norm.3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.3.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --force
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --force
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --force -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -a --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --force -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -a
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -a
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -a -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -a -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any --old-rec-tag OLD_REC --force -a /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.1.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.1.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.2.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.2.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . /tmp/tEeZNgWzTt/atomize.split.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . /tmp/CSPvpz0kTu/atomize.split.3.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . /tmp/tEeZNgWzTt/atomize.split.3.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . /tmp/CSPvpz0kTu/atomize.split.3.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.4.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/tEeZNgWzTt/atomize.split.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/CSPvpz0kTu/atomize.split.4.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/tEeZNgWzTt/atomize.split.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --atom-overlaps . --old-rec-tag OLD_REC -i 'ILEN=0' /tmp/CSPvpz0kTu/atomize.split.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/tEeZNgWzTt/atomize.split.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/CSPvpz0kTu/atomize.split.5.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/tEeZNgWzTt/atomize.split.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC --atom-overlaps . /tmp/CSPvpz0kTu/atomize.split.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.5.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/tEeZNgWzTt/atomize.split.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --atomize --old-rec-tag OLD_REC /tmp/CSPvpz0kTu/atomize.split.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/tEeZNgWzTt/norm.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/CSPvpz0kTu/norm.4.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/tEeZNgWzTt/norm.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/CSPvpz0kTu/norm.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/tEeZNgWzTt/norm.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/CSPvpz0kTu/norm.4.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/tEeZNgWzTt/norm.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/CSPvpz0kTu/norm.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/tEeZNgWzTt/norm.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/CSPvpz0kTu/norm.5.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/tEeZNgWzTt/norm.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps 0 /tmp/CSPvpz0kTu/norm.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps . /tmp/tEeZNgWzTt/norm.5.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps . /tmp/CSPvpz0kTu/norm.5.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps . /tmp/tEeZNgWzTt/norm.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - --multi-overlaps . /tmp/CSPvpz0kTu/norm.5.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/tEeZNgWzTt/norm.m-any.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/CSPvpz0kTu/norm.m-any.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/tEeZNgWzTt/norm.m-any.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/CSPvpz0kTu/norm.m-any.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/tEeZNgWzTt/norm.phased-split.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/CSPvpz0kTu/norm.phased-split.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/tEeZNgWzTt/norm.phased-split.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/CSPvpz0kTu/norm.phased-split.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/tEeZNgWzTt/norm.phased-join.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/CSPvpz0kTu/norm.phased-join.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/tEeZNgWzTt/norm.phased-join.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/CSPvpz0kTu/norm.phased-join.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/tEeZNgWzTt/norm.symbolic.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/CSPvpz0kTu/norm.symbolic.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/tEeZNgWzTt/norm.symbolic.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/CSPvpz0kTu/norm.symbolic.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/tEeZNgWzTt/norm.symbolic.2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/CSPvpz0kTu/norm.symbolic.2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/tEeZNgWzTt/norm.symbolic.2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/CSPvpz0kTu/norm.symbolic.2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.symbolic.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/tEeZNgWzTt/norm.right-align.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.right-align.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/CSPvpz0kTu/norm.right-align.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.right-align.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/tEeZNgWzTt/norm.right-align.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.right-align.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI /tmp/CSPvpz0kTu/norm.right-align.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.right-align.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI -g /build/reproducible-path/bcftools-1.21/test/norm.right-align.gff /tmp/tEeZNgWzTt/norm.right-align.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.right-align.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI -g /build/reproducible-path/bcftools-1.21/test/norm.right-align.gff /tmp/CSPvpz0kTu/norm.right-align.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.right-align.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI -g /build/reproducible-path/bcftools-1.21/test/norm.right-align.gff /tmp/tEeZNgWzTt/norm.right-align.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.right-align.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI -g /build/reproducible-path/bcftools-1.21/test/norm.right-align.gff /tmp/CSPvpz0kTu/norm.right-align.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.right-align.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/tEeZNgWzTt/norm.atom-split-norm.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.atom-split-norm.fa
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/CSPvpz0kTu/norm.atom-split-norm.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.atom-split-norm.fa
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/tEeZNgWzTt/norm.atom-split-norm.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.atom-split-norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version --old-rec-tag ORI -a -m -any /tmp/CSPvpz0kTu/norm.atom-split-norm.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/norm.atom-split-norm.fa -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/tEeZNgWzTt/norm.string-tags.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/CSPvpz0kTu/norm.string-tags.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/tEeZNgWzTt/norm.string-tags.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m -any /tmp/CSPvpz0kTu/norm.string-tags.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +indels
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +indels
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +indels -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +indels -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +snps
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +snps
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +snps -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +snps -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +snps
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +snps
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +snps -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +snps -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - -i 'type="snp"' /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - -i 'type="snp"' /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - -i 'type="snp"' /tmp/tEeZNgWzTt/norm.split.merge.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m - -i 'type="snp"' /tmp/CSPvpz0kTu/norm.split.merge.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/tEeZNgWzTt/norm.merge.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/CSPvpz0kTu/norm.merge.4.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/tEeZNgWzTt/norm.merge.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +any /tmp/CSPvpz0kTu/norm.merge.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/tEeZNgWzTt/norm.merge.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/CSPvpz0kTu/norm.merge.4.vcf.gz
.. ok
test_vcf_norm:
- /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/tEeZNgWzTt/norm.merge.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools norm --no-version -m +both /tmp/CSPvpz0kTu/norm.merge.4.vcf.gz -Ou | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -i 'INFO/TAG=@/build/reproducible-path/bcftools-1.21/test/filter.string.1.txt' /tmp/tEeZNgWzTt/filter.string.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -i 'INFO/TAG=@/build/reproducible-path/bcftools-1.21/test/filter.string.1.txt' /tmp/CSPvpz0kTu/filter.string.1.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -i 'INFO/TAG=@/build/reproducible-path/bcftools-1.21/test/filter.string.1.txt' /tmp/tEeZNgWzTt/filter.string.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -i 'INFO/TAG=@/build/reproducible-path/bcftools-1.21/test/filter.string.1.txt' /tmp/CSPvpz0kTu/filter.string.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -i 'FMT/TAG=@/build/reproducible-path/bcftools-1.21/test/filter.string.1.txt' /tmp/tEeZNgWzTt/filter.string.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -i 'FMT/TAG=@/build/reproducible-path/bcftools-1.21/test/filter.string.1.txt' /tmp/CSPvpz0kTu/filter.string.1.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -i 'FMT/TAG=@/build/reproducible-path/bcftools-1.21/test/filter.string.1.txt' /tmp/tEeZNgWzTt/filter.string.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -i 'FMT/TAG=@/build/reproducible-path/bcftools-1.21/test/filter.string.1.txt' /tmp/CSPvpz0kTu/filter.string.1.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -HA /tmp/tEeZNgWzTt/merge.gvcf.2.a.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -HA /tmp/CSPvpz0kTu/merge.gvcf.2.a.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -HAA /tmp/tEeZNgWzTt/merge.gvcf.2.a.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -HAA /tmp/CSPvpz0kTu/merge.gvcf.2.a.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r 1
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r 1
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r 1 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r 1 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r 1:1-2
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r 1:1-2
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r 1:1-2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r 1:1-2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r 1:1,1:2
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r 1:1,1:2
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r 1:1,1:2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r 1:1,1:2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r 1:1-1
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r 1:1-1
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r 1:1-1 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r 1:1-1 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1}
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1}
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1} | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1} | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1}:1-2
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1}:1-2
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1}:1-2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1}:1-2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1}:1,{1:1}:2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1}:1-1
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1}:1-1
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1}:1-1 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1}:1-1 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1} | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1} | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}:1-2
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}:1-2
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}:1-2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}:1-2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}:1,{1:1-1}:2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}:1-1
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}:1-1
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}:1-1 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}:1-1 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}-2
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}-2
.. ok, expected non-zero status
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/weird-chr-names.vcf.gz -r {1:1-1}-2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/weird-chr-names.vcf.gz -r {1:1-1}-2 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok, expected non-zero status
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -aUc1 -C1 -s NA00002 -v snps /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -aUc1 -C1 -s NA00002 -v snps /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -aUc1 -C1 -s NA00002 -v snps /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -aUc1 -C1 -s NA00002 -v snps /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -f PASS -Xks NA00003 /tmp/tEeZNgWzTt/view.vcf.gz -r20,Y
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -f PASS -Xks NA00003 /tmp/CSPvpz0kTu/view.vcf.gz -r20,Y
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -f PASS -Xks NA00003 /tmp/tEeZNgWzTt/view.vcf.gz -r20,Y | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -f PASS -Xks NA00003 /tmp/CSPvpz0kTu/view.vcf.gz -r20,Y | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -xs NA00003 /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -xs NA00003 /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -xs NA00003 /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -xs NA00003 /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -p /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -p /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -p /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -p /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -P /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -P /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -P /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -P /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -hm2 -M2 -q0.3 -Q0.7 /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -hm2 -M2 -q0.3 -Q0.7 /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -hm2 -M2 -q0.3 -Q0.7 /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -hm2 -M2 -q0.3 -Q0.7 /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Hu /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Hu /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -GVsnps /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -GVsnps /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -GVsnps /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -GVsnps /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -ne 'INDEL=1 || PV4[0]<0.006' /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -ne 'INDEL=1 || PV4[0]<0.006' /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -ne 'INDEL=1 || PV4[0]<0.006' /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -ne 'INDEL=1 || PV4[0]<0.006' /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -s ^NA00003 /tmp/tEeZNgWzTt/view.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -s ^NA00003 /tmp/CSPvpz0kTu/view.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -s ^NA00003 /tmp/tEeZNgWzTt/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -s ^NA00003 /tmp/CSPvpz0kTu/view.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/tEeZNgWzTt/view.omitgenotypes.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version /tmp/CSPvpz0kTu/view.omitgenotypes.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/view.omitgenotypes.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/view.omitgenotypes.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -G /tmp/tEeZNgWzTt/view.omitgenotypes.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -G /tmp/CSPvpz0kTu/view.omitgenotypes.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -G /tmp/tEeZNgWzTt/view.omitgenotypes.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -G /tmp/CSPvpz0kTu/view.omitgenotypes.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -HG /tmp/tEeZNgWzTt/view.omitgenotypes.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -HG /tmp/CSPvpz0kTu/view.omitgenotypes.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -a /tmp/tEeZNgWzTt/many.alleles.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -a /tmp/CSPvpz0kTu/many.alleles.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -a /tmp/tEeZNgWzTt/many.alleles.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -a /tmp/CSPvpz0kTu/many.alleles.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -asA /tmp/tEeZNgWzTt/view.vectors.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -asA /tmp/CSPvpz0kTu/view.vectors.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -asA /tmp/tEeZNgWzTt/view.vectors.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -asA /tmp/CSPvpz0kTu/view.vectors.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -asB /tmp/tEeZNgWzTt/view.vectors.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -asB /tmp/CSPvpz0kTu/view.vectors.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -asB /tmp/tEeZNgWzTt/view.vectors.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -asB /tmp/CSPvpz0kTu/view.vectors.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -asA /tmp/tEeZNgWzTt/view.vectors.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -asA /tmp/CSPvpz0kTu/view.vectors.2.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -asA /tmp/tEeZNgWzTt/view.vectors.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -asA /tmp/CSPvpz0kTu/view.vectors.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'FMT/FGS[*:0]="AAAAAA"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'FMT/FGS[*:0]="AAAAAA"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'FMT/FGS[*:2]="C"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'FMT/FGS[*:2]="C"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'FMT/FGS[*:4]="EE"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'FMT/FGS[*:4]="EE"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'FMT/FRS[*:1]="BB"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'FMT/FRS[*:1]="BB"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'TXT0="text"' /tmp/tEeZNgWzTt/view.filter.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i'TXT0="text"' /tmp/CSPvpz0kTu/view.filter.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -T /build/reproducible-path/bcftools-1.21/test/view.chrs.tab /tmp/tEeZNgWzTt/view.chrs.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -T /build/reproducible-path/bcftools-1.21/test/view.chrs.tab /tmp/CSPvpz0kTu/view.chrs.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -T /build/reproducible-path/bcftools-1.21/test/view.chrs.tab /tmp/tEeZNgWzTt/view.chrs.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -T /build/reproducible-path/bcftools-1.21/test/view.chrs.tab /tmp/CSPvpz0kTu/view.chrs.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -i 'POS>=3062917' /tmp/tEeZNgWzTt/filter.2.vcf.gz 1:3062917-3157410
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -i 'POS>=3062917' /tmp/CSPvpz0kTu/filter.2.vcf.gz 1:3062917-3157410
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -i 'POS>=3062917' /tmp/tEeZNgWzTt/filter.2.vcf.gz 1:3062917-3157410 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -i 'POS>=3062917' /tmp/CSPvpz0kTu/filter.2.vcf.gz 1:3062917-3157410 | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r 1:10,1:12,1:10 /tmp/tEeZNgWzTt/idx.1.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r 1:10,1:12,1:10 /tmp/CSPvpz0kTu/idx.1.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r 1:1172777-1172804,1:1172806-1172808 /tmp/tEeZNgWzTt/idx.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r 1:1172777-1172804,1:1172806-1172808 /tmp/CSPvpz0kTu/idx.2.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -R /build/reproducible-path/bcftools-1.21/test/idx.2.bed /tmp/tEeZNgWzTt/idx.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -R /build/reproducible-path/bcftools-1.21/test/idx.2.bed /tmp/CSPvpz0kTu/idx.2.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -R /build/reproducible-path/bcftools-1.21/test/idx.3.bed /tmp/tEeZNgWzTt/idx.3.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -R /build/reproducible-path/bcftools-1.21/test/idx.3.bed /tmp/CSPvpz0kTu/idx.3.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -R /build/reproducible-path/bcftools-1.21/test/idx.4.bed /tmp/tEeZNgWzTt/idx.4.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -R /build/reproducible-path/bcftools-1.21/test/idx.4.bed /tmp/CSPvpz0kTu/idx.4.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ht 2 /tmp/tEeZNgWzTt/view-t.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ht 2 /tmp/CSPvpz0kTu/view-t.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ht 3 /tmp/tEeZNgWzTt/view-t.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ht 3 /tmp/CSPvpz0kTu/view-t.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 0 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 0 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 1 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 1 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 2 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -r chr1:100-200 --regions-overlap 2 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 0 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 0 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 1 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 1 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 2 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t chr1:100-200 --targets-overlap 2 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 0 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 0 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 1 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 1 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 2 /tmp/tEeZNgWzTt/overlap.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -t ^chr1:100-200 --targets-overlap 2 /tmp/CSPvpz0kTu/overlap.vcf.gz
.. ok
test_vcf_64bit:
@@ -4100,47 +4136,47 @@
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -C5:nonmajor /tmp/tEeZNgWzTt/view.minmaxac.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -C5:nonmajor /tmp/CSPvpz0kTu/view.minmaxac.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -c6:nonmajor /tmp/tEeZNgWzTt/view.minmaxac.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -c6:nonmajor /tmp/CSPvpz0kTu/view.minmaxac.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -q0.3:major /tmp/tEeZNgWzTt/view.minmaxac.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -q0.3:major /tmp/CSPvpz0kTu/view.minmaxac.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i 'Gene.refGene=="RAD21L1"' /tmp/tEeZNgWzTt/view.filter.annovar.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i 'Gene.refGene=="RAD21L1"' /tmp/CSPvpz0kTu/view.filter.annovar.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i 'Gene.refGene~"NOD"' /tmp/tEeZNgWzTt/view.filter.annovar.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i 'Gene.refGene~"NOD"' /tmp/CSPvpz0kTu/view.filter.annovar.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i 'LJB2_MutationTaster=="0.291000"' /tmp/tEeZNgWzTt/view.filter.annovar.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -i 'LJB2_MutationTaster=="0.291000"' /tmp/CSPvpz0kTu/view.filter.annovar.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -a /tmp/tEeZNgWzTt/view-a.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -H -a /tmp/CSPvpz0kTu/view-a.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -T /build/reproducible-path/bcftools-1.21/test/view.sites.txt /tmp/tEeZNgWzTt/view.sites.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -T /build/reproducible-path/bcftools-1.21/test/view.sites.txt /tmp/CSPvpz0kTu/view.sites.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -T /build/reproducible-path/bcftools-1.21/test/view.sites.txt /tmp/tEeZNgWzTt/view.sites.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -T /build/reproducible-path/bcftools-1.21/test/view.sites.txt /tmp/CSPvpz0kTu/view.sites.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -T /build/reproducible-path/bcftools-1.21/test/view.sites.txt.gz /tmp/tEeZNgWzTt/view.sites.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -T /build/reproducible-path/bcftools-1.21/test/view.sites.txt.gz /tmp/CSPvpz0kTu/view.sites.vcf.gz
.. ok
test_vcf_view:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob -T /build/reproducible-path/bcftools-1.21/test/view.sites.txt.gz /tmp/tEeZNgWzTt/view.sites.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob -T /build/reproducible-path/bcftools-1.21/test/view.sites.txt.gz /tmp/CSPvpz0kTu/view.sites.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_head:
@@ -4184,27 +4220,27 @@
.. ok
test_vcf_head2:
- /build/reproducible-path/bcftools-1.21/bcftools head -s0 /tmp/tEeZNgWzTt/mpileup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools head -s0 /tmp/CSPvpz0kTu/mpileup.2.vcf.gz
.. ok
test_vcf_head2:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ob /tmp/tEeZNgWzTt/mpileup.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools head -s0
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ob /tmp/CSPvpz0kTu/mpileup.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools head -s0
.. ok
test_vcf_head2:
- /build/reproducible-path/bcftools-1.21/bcftools head -s1 /tmp/tEeZNgWzTt/mpileup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools head -s1 /tmp/CSPvpz0kTu/mpileup.2.vcf.gz
.. ok
test_vcf_head2:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ob /tmp/tEeZNgWzTt/mpileup.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools head -s1
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ob /tmp/CSPvpz0kTu/mpileup.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools head -s1
.. ok
test_vcf_head2:
- /build/reproducible-path/bcftools-1.21/bcftools head -s2 -h2 /tmp/tEeZNgWzTt/mpileup.2.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools head -s2 -h2 /tmp/CSPvpz0kTu/mpileup.2.vcf.gz
.. ok
test_vcf_head2:
- /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ob /tmp/tEeZNgWzTt/mpileup.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools head -s2 -h2
+ /build/reproducible-path/bcftools-1.21/bcftools view --no-version -Ob /tmp/CSPvpz0kTu/mpileup.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools head -s2 -h2
.. ok
test_vcf_call:
@@ -4312,75 +4348,75 @@
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.2.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.2.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.2.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.2.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.2.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.2.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.3.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.3.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.3.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.3.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.4.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.4.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.4.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.4.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.5.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.5.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.5.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.5.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.6.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.4.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.6.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.4.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.6.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.4.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.6.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.4.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.7.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.5.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.7.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.5.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.7.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.5.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.7.tab.gz -i /build/reproducible-path/bcftools-1.21/test/mpileup.5.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.cals.1.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.cals.1.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.cals.1.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.cals.1.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.cals.1.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.cals.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.cals.1.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.cals.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.cals.2.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.cals.2.vcf
+ /build/reproducible-path/bcftools-1.21/bcftools call --no-version -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.cals.2.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.cals.2.vcf
.. ok
test_vcf_call_cAls:
- /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/tEeZNgWzTt/mpileup.cals.2.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.cals.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools call -Ob -mA -C alleles -T /tmp/CSPvpz0kTu/mpileup.cals.2.tab.gz /build/reproducible-path/bcftools-1.21/test/mpileup.cals.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_call:
@@ -5096,155 +5132,155 @@
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /build/reproducible-path/bcftools-1.21/test/regions.tab /tmp/tEeZNgWzTt/regions.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /build/reproducible-path/bcftools-1.21/test/regions.tab /tmp/CSPvpz0kTu/regions.vcf.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/regions.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /build/reproducible-path/bcftools-1.21/test/regions.tab
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/regions.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /build/reproducible-path/bcftools-1.21/test/regions.tab
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /build/reproducible-path/bcftools-1.21/test/regions.tab /tmp/tEeZNgWzTt/regions.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /build/reproducible-path/bcftools-1.21/test/regions.tab /tmp/CSPvpz0kTu/regions.vcf.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/tEeZNgWzTt/regions.tab.gz /tmp/tEeZNgWzTt/regions.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/CSPvpz0kTu/regions.tab.gz /tmp/CSPvpz0kTu/regions.vcf.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/regions.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/tEeZNgWzTt/regions.tab.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/regions.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/CSPvpz0kTu/regions.tab.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/tEeZNgWzTt/regions.tab.gz /tmp/tEeZNgWzTt/regions.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/CSPvpz0kTu/regions.tab.gz /tmp/CSPvpz0kTu/regions.vcf.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/tEeZNgWzTt/regions.bed /tmp/tEeZNgWzTt/regions.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/CSPvpz0kTu/regions.bed /tmp/CSPvpz0kTu/regions.vcf.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/regions.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/tEeZNgWzTt/regions.bed
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/regions.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/CSPvpz0kTu/regions.bed
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/tEeZNgWzTt/regions.bed /tmp/tEeZNgWzTt/regions.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/CSPvpz0kTu/regions.bed /tmp/CSPvpz0kTu/regions.vcf.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/tEeZNgWzTt/regions.bed.gz /tmp/tEeZNgWzTt/regions.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/CSPvpz0kTu/regions.bed.gz /tmp/CSPvpz0kTu/regions.vcf.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/regions.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/tEeZNgWzTt/regions.bed.gz
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/regions.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/CSPvpz0kTu/regions.bed.gz
.. ok
test_vcf_regions:
- /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/tEeZNgWzTt/regions.bed.gz /tmp/tEeZNgWzTt/regions.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/CSPvpz0kTu/regions.bed.gz /tmp/CSPvpz0kTu/regions.vcf.gz
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.escape.1.tab.gz -c CHROM,POS,ISTR,FMT/FSTR /build/reproducible-path/bcftools-1.21/test/annotate.escape.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.escape.1.tab.gz -c CHROM,POS,ISTR,FMT/FSTR /build/reproducible-path/bcftools-1.21/test/annotate.escape.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.escape.1.tab.gz -c CHROM,POS,ISTR,FMT/FSTR /build/reproducible-path/bcftools-1.21/test/annotate.escape.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.escape.1.tab.gz -c CHROM,POS,ISTR,FMT/FSTR /build/reproducible-path/bcftools-1.21/test/annotate.escape.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.match.1.tab.gz -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.match.1.tab.gz -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.match.1.tab.gz -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.match.1.tab.gz -c CHROM,POS,-,-,SCORE,~X,-,- -i'STR={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.match.1.tab.gz -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.match.1.tab.gz -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.match.1.tab.gz -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.match.1.tab.gz -c CHROM,POS,REF,ALT,SCORE,-,~X,- -i'INT={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.match.1.tab.gz -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.match.1.tab.gz -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.match.1.tab.gz -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.match.1.tab.gz -c CHROM,POS,REF,ALT,SCORE,-,-,~X -i'FLT={X}' /build/reproducible-path/bcftools-1.21/test/annotate.match.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate2.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,POS,-,T_STR /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate2.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,POS,-,T_STR /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate2.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,POS,-,T_STR /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate2.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,POS,-,T_STR /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate2.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,FROM,TO,T_STR /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate2.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,FROM,TO,T_STR /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate2.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,FROM,TO,T_STR /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate2.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate.hdr -c CHROM,FROM,TO,T_STR /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots.vcf.gz -c STR,ID,QUAL,FILTER /tmp/tEeZNgWzTt/annotate.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots.vcf.gz -c STR,ID,QUAL,FILTER /tmp/CSPvpz0kTu/annotate.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots.vcf.gz -c STR,ID,QUAL,FILTER /tmp/tEeZNgWzTt/annotate.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots.vcf.gz -c STR,ID,QUAL,FILTER /tmp/CSPvpz0kTu/annotate.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,FILTER,INFO,FMT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,FILTER,INFO,FMT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,FILTER,INFO,FMT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,FILTER,INFO,FMT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A B" /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "A C" /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s "B C" /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
@@ -5264,115 +5300,115 @@
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots4.vcf.gz -c +INFO /tmp/tEeZNgWzTt/annotate4.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots4.vcf.gz -c +INFO /tmp/CSPvpz0kTu/annotate4.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots4.vcf.gz -c +INFO /tmp/tEeZNgWzTt/annotate4.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots4.vcf.gz -c +INFO /tmp/CSPvpz0kTu/annotate4.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots4.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /build/reproducible-path/bcftools-1.21/test/annotate4.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots4.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /build/reproducible-path/bcftools-1.21/test/annotate4.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots4.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /build/reproducible-path/bcftools-1.21/test/annotate4.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots4.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /build/reproducible-path/bcftools-1.21/test/annotate4.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots10.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /build/reproducible-path/bcftools-1.21/test/annotate10.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots10.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /build/reproducible-path/bcftools-1.21/test/annotate10.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots10.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /build/reproducible-path/bcftools-1.21/test/annotate10.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots10.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /build/reproducible-path/bcftools-1.21/test/annotate10.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots11.tab.gz -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /build/reproducible-path/bcftools-1.21/test/annotate2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots11.tab.gz -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /build/reproducible-path/bcftools-1.21/test/annotate2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots11.tab.gz -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /build/reproducible-path/bcftools-1.21/test/annotate2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots11.tab.gz -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR -s A /build/reproducible-path/bcftools-1.21/test/annotate2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c AAA:=IINT,FMT/BBB:=FMT/FINT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -x INFO -c INFO/IINT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -x INFO -c INFO/IINT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -x INFO -c INFO/IINT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -x INFO -c INFO/IINT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -x INFO -c INFO/IINT -e'POS=3000001' -k /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots11.vcf.gz -c FMT /tmp/tEeZNgWzTt/annotate11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots11.vcf.gz -c FMT /tmp/CSPvpz0kTu/annotate11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots11.vcf.gz -c FMT /tmp/tEeZNgWzTt/annotate11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots11.vcf.gz -c FMT /tmp/CSPvpz0kTu/annotate11.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c FMT/newGT:=GT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c FMT/newGT:=GT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots2.vcf.gz -c FMT/newGT:=GT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots2.vcf.gz -c FMT/newGT:=GT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots12.vcf.gz -c FMT/GT:=newGT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots12.vcf.gz -c FMT/GT:=newGT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots12.vcf.gz -c FMT/GT:=newGT /tmp/tEeZNgWzTt/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots12.vcf.gz -c FMT/GT:=newGT /tmp/CSPvpz0kTu/annotate2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:append /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots13.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate13.hdr -c CHROM,BEG,END,ABC -l ABC:unique /build/reproducible-path/bcftools-1.21/test/annotate13.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
@@ -5384,27 +5420,27 @@
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate15.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate15.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate15.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate15.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate15.hdr -s SAMPLE1 -c CHROM,FROM,TO,FMT/FOO,BAR /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate15.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate15.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate15.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate15.tab.gz -h /build/reproducible-path/bcftools-1.21/test/annotate15.hdr -s SAMPLE2 -c CHROM,FROM,TO,FMT/FOO,BAR /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/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">' /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/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">' /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/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">' /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/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">' /build/reproducible-path/bcftools-1.21/test/annotate15.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
@@ -5416,67 +5452,67 @@
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate17.1.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate17.1.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate17.1.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate17.1.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate17.1.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate17.1.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate17.1.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate17.1.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate17.3.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate17.3.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate17.3.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate17.3.tab.gz -c CHROM,BEG,END,A,B -l A:append,B:append /build/reproducible-path/bcftools-1.21/test/annotate17.3.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate18.1.tab.gz -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /build/reproducible-path/bcftools-1.21/test/annotate18.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate18.1.tab.gz -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /build/reproducible-path/bcftools-1.21/test/annotate18.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate18.1.tab.gz -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /build/reproducible-path/bcftools-1.21/test/annotate18.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate18.1.tab.gz -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /build/reproducible-path/bcftools-1.21/test/annotate18.1.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate18.2.tab.gz -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /build/reproducible-path/bcftools-1.21/test/annotate18.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate18.2.tab.gz -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /build/reproducible-path/bcftools-1.21/test/annotate18.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate18.2.tab.gz -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /build/reproducible-path/bcftools-1.21/test/annotate18.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate18.2.tab.gz -c CHROM,BEG,END,A,B,C,D,E -l A:sum,B:avg,C:min,D:max,E:append /build/reproducible-path/bcftools-1.21/test/annotate18.2.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/ID:=ID,INFO/INFO_ID:=INFO/ID,ID,=ID:=INFO/ID /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c FILTER,INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/FILTER:=FILTER,INFO/INFO_FILTER:=INFO/FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
@@ -5488,83 +5524,83 @@
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/FILTER:=FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/FILTER:=FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/FILTER:=FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/FILTER:=FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/FILTER:=./FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/FILTER:=./FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/FILTER:=./FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/FILTER:=./FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/FILTER:=./FILTER,FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/FILTER:=./FILTER,FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c INFO/FILTER:=./FILTER,FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c INFO/FILTER:=./FILTER,FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c FILTER,INFO/FILTER:=./FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c FILTER,INFO/FILTER:=./FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate19.src.vcf.gz -c FILTER,INFO/FILTER:=./FILTER /tmp/tEeZNgWzTt/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate19.src.vcf.gz -c FILTER,INFO/FILTER:=./FILTER /tmp/CSPvpz0kTu/annotate19.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate20.src.vcf.gz -c FMT/GT /tmp/tEeZNgWzTt/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate20.src.vcf.gz -c FMT/GT /tmp/CSPvpz0kTu/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate20.src.vcf.gz -c FMT/GT /tmp/tEeZNgWzTt/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate20.src.vcf.gz -c FMT/GT /tmp/CSPvpz0kTu/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate20.src.vcf.gz -c +FMT/GT /tmp/tEeZNgWzTt/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate20.src.vcf.gz -c +FMT/GT /tmp/CSPvpz0kTu/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate20.src.vcf.gz -c +FMT/GT /tmp/tEeZNgWzTt/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate20.src.vcf.gz -c +FMT/GT /tmp/CSPvpz0kTu/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate20.src.vcf.gz -c -FMT/GT /tmp/tEeZNgWzTt/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate20.src.vcf.gz -c -FMT/GT /tmp/CSPvpz0kTu/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate20.src.vcf.gz -c -FMT/GT /tmp/tEeZNgWzTt/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate20.src.vcf.gz -c -FMT/GT /tmp/CSPvpz0kTu/annotate20.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.multi.tab.gz -c CHROM,POS,REF,ALT,ANN -l ANN:append /build/reproducible-path/bcftools-1.21/test/annotate.multi.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.multi.tab.gz -c CHROM,POS,REF,ALT,ANN -l ANN:append /build/reproducible-path/bcftools-1.21/test/annotate.multi.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.multi.tab.gz -c CHROM,POS,REF,ALT,ANN -l ANN:append /build/reproducible-path/bcftools-1.21/test/annotate.multi.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.multi.tab.gz -c CHROM,POS,REF,ALT,ANN -l ANN:append /build/reproducible-path/bcftools-1.21/test/annotate.multi.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.missing-append.tab.gz -c CHROM,POS,REF,ALT,STR,INT,FLT -l STR:append-missing,INT:append-missing,FLT:append-missing /build/reproducible-path/bcftools-1.21/test/annotate.missing-append.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.missing-append.tab.gz -c CHROM,POS,REF,ALT,STR,INT,FLT -l STR:append-missing,INT:append-missing,FLT:append-missing /build/reproducible-path/bcftools-1.21/test/annotate.missing-append.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.missing-append.tab.gz -c CHROM,POS,REF,ALT,STR,INT,FLT -l STR:append-missing,INT:append-missing,FLT:append-missing /build/reproducible-path/bcftools-1.21/test/annotate.missing-append.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.missing-append.tab.gz -c CHROM,POS,REF,ALT,STR,INT,FLT -l STR:append-missing,INT:append-missing,FLT:append-missing /build/reproducible-path/bcftools-1.21/test/annotate.missing-append.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots9.tab.gz -c CHROM,POS,REF,ALT,+ID /build/reproducible-path/bcftools-1.21/test/annotate9.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots9.tab.gz -c CHROM,POS,REF,ALT,+ID /build/reproducible-path/bcftools-1.21/test/annotate9.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots9.tab.gz -c CHROM,POS,REF,ALT,+ID /build/reproducible-path/bcftools-1.21/test/annotate9.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots9.tab.gz -c CHROM,POS,REF,ALT,+ID /build/reproducible-path/bcftools-1.21/test/annotate9.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
@@ -5584,179 +5620,179 @@
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate22.vcf.gz -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/tEeZNgWzTt/annotate22.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate22.vcf.gz -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/CSPvpz0kTu/annotate22.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate22.vcf.gz -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/tEeZNgWzTt/annotate22.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate22.vcf.gz -c FMT/XX,INFO/XX -x FMT/XX,INFO/XX /tmp/CSPvpz0kTu/annotate22.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate23.tab.gz -c CHROM,POS,~ID,REF,ALT,INFO/END /build/reproducible-path/bcftools-1.21/test/annotate23.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate23.tab.gz -c CHROM,POS,~ID,REF,ALT,INFO/END /build/reproducible-path/bcftools-1.21/test/annotate23.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate23.tab.gz -c CHROM,POS,~ID,REF,ALT,INFO/END /build/reproducible-path/bcftools-1.21/test/annotate23.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate23.tab.gz -c CHROM,POS,~ID,REF,ALT,INFO/END /build/reproducible-path/bcftools-1.21/test/annotate23.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate24.src.vcf.gz -c XX /tmp/tEeZNgWzTt/annotate24.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate24.src.vcf.gz -c XX /tmp/CSPvpz0kTu/annotate24.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate24.src.vcf.gz -c XX /tmp/tEeZNgWzTt/annotate24.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate24.src.vcf.gz -c XX /tmp/CSPvpz0kTu/annotate24.dst.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate25.tab.gz -c CHROM,POS,ID,REF,ALT,~INFO/END /build/reproducible-path/bcftools-1.21/test/annotate25.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate25.tab.gz -c CHROM,POS,ID,REF,ALT,~INFO/END /build/reproducible-path/bcftools-1.21/test/annotate25.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate25.tab.gz -c CHROM,POS,ID,REF,ALT,~INFO/END /build/reproducible-path/bcftools-1.21/test/annotate25.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate25.tab.gz -c CHROM,POS,ID,REF,ALT,~INFO/END /build/reproducible-path/bcftools-1.21/test/annotate25.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate26.tab.gz -c CHROM,POS,-POS /build/reproducible-path/bcftools-1.21/test/annotate26.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate26.tab.gz -c CHROM,POS,-POS /build/reproducible-path/bcftools-1.21/test/annotate26.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate26.tab.gz -c CHROM,POS,-POS /build/reproducible-path/bcftools-1.21/test/annotate26.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate26.tab.gz -c CHROM,POS,-POS /build/reproducible-path/bcftools-1.21/test/annotate26.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,TSTR,TFLT,TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.TSTR,.TFLT,.TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.+TSTR,.+TFLT,.+TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,+TSTR,+TFLT,+TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,.=TSTR,.=TFLT,.=TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate.missing.tab.gz -c CHROM,POS,REF,ALT,=TSTR,=TFLT,=TINT /build/reproducible-path/bcftools-1.21/test/annotate.missing.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots.olap.tab.gz -c CHROM,BEG,END,DB -l DB:unique /build/reproducible-path/bcftools-1.21/test/annotate.olap.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots.olap.tab.gz -c CHROM,BEG,END,DB -l DB:unique /build/reproducible-path/bcftools-1.21/test/annotate.olap.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots.olap.tab.gz -c CHROM,BEG,END,DB -l DB:unique /build/reproducible-path/bcftools-1.21/test/annotate.olap.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots.olap.tab.gz -c CHROM,BEG,END,DB -l DB:unique /build/reproducible-path/bcftools-1.21/test/annotate.olap.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots.olap.tab.gz -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 -m XXX /build/reproducible-path/bcftools-1.21/test/annotate.olap.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots.olap.tab.gz -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 -m XXX /build/reproducible-path/bcftools-1.21/test/annotate.olap.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots.olap.tab.gz -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 -m XXX /build/reproducible-path/bcftools-1.21/test/annotate.olap.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots.olap.tab.gz -c CHROM,BEG,END,DB -l DB:unique --min-overlap 0.4:0.5 -m XXX /build/reproducible-path/bcftools-1.21/test/annotate.olap.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots.id.vcf.gz -c ALT /tmp/tEeZNgWzTt/annotate.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots.id.vcf.gz -c ALT /tmp/CSPvpz0kTu/annotate.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots.id.vcf.gz -c ALT /tmp/tEeZNgWzTt/annotate.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots.id.vcf.gz -c ALT /tmp/CSPvpz0kTu/annotate.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots.id.vcf.gz -c +ALT /tmp/tEeZNgWzTt/annotate.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots.id.vcf.gz -c +ALT /tmp/CSPvpz0kTu/annotate.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots.id.vcf.gz -c +ALT /tmp/tEeZNgWzTt/annotate.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots.id.vcf.gz -c +ALT /tmp/CSPvpz0kTu/annotate.id.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots.id.2.vcf.gz --pair-logic some -c +ID /tmp/tEeZNgWzTt/annotate.id.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots.id.2.vcf.gz --pair-logic some -c +ID /tmp/CSPvpz0kTu/annotate.id.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots.id.2.vcf.gz --pair-logic some -c +ID /tmp/tEeZNgWzTt/annotate.id.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots.id.2.vcf.gz --pair-logic some -c +ID /tmp/CSPvpz0kTu/annotate.id.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots.id.2.vcf.gz --pair-logic any -c +ID /tmp/tEeZNgWzTt/annotate.id.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots.id.2.vcf.gz --pair-logic any -c +ID /tmp/CSPvpz0kTu/annotate.id.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots.id.2.vcf.gz --pair-logic any -c +ID /tmp/tEeZNgWzTt/annotate.id.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots.id.2.vcf.gz --pair-logic any -c +ID /tmp/CSPvpz0kTu/annotate.id.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annotate27.tab.gz -c CHROM,POS,REF,ALT,EVIDENCE /build/reproducible-path/bcftools-1.21/test/annotate27.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annotate27.tab.gz -c CHROM,POS,REF,ALT,EVIDENCE /build/reproducible-path/bcftools-1.21/test/annotate27.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annotate27.tab.gz -c CHROM,POS,REF,ALT,EVIDENCE /build/reproducible-path/bcftools-1.21/test/annotate27.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annotate27.tab.gz -c CHROM,POS,REF,ALT,EVIDENCE /build/reproducible-path/bcftools-1.21/test/annotate27.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1,smpl2 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2,smpl1 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl1 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots28.tab.gz -c CHROM,POS,REF,ALT,FMT/TEST -s smpl2 /build/reproducible-path/bcftools-1.21/test/annotate28.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
@@ -5768,148 +5804,148 @@
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots34.tab.gz -c CHROM,FROM,TO,INFO/END -H '##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate in reference for SV">' /build/reproducible-path/bcftools-1.21/test/annotate34.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots34.tab.gz -c CHROM,FROM,TO,INFO/END -H '##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate in reference for SV">' /build/reproducible-path/bcftools-1.21/test/annotate34.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots34.tab.gz -c CHROM,FROM,TO,INFO/END -H '##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate in reference for SV">' /build/reproducible-path/bcftools-1.21/test/annotate34.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots34.tab.gz -c CHROM,FROM,TO,INFO/END -H '##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate in reference for SV">' /build/reproducible-path/bcftools-1.21/test/annotate34.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/tEeZNgWzTt/annots-mark.bed.gz -c CHROM,FROM,TO -m TAG /build/reproducible-path/bcftools-1.21/test/annots-mark.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -a /tmp/CSPvpz0kTu/annots-mark.bed.gz -c CHROM,FROM,TO -m TAG /build/reproducible-path/bcftools-1.21/test/annots-mark.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_annotate:
- /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/tEeZNgWzTt/annots-mark.bed.gz -c CHROM,FROM,TO -m TAG /build/reproducible-path/bcftools-1.21/test/annots-mark.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools annotate -Ob -a /tmp/CSPvpz0kTu/annots-mark.bed.gz -c CHROM,FROM,TO -m TAG /build/reproducible-path/bcftools-1.21/test/annots-mark.vcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version /tmp/tEeZNgWzTt/concat.1.a.vcf.gz /tmp/tEeZNgWzTt/concat.1.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version /tmp/CSPvpz0kTu/concat.1.a.vcf.gz /tmp/CSPvpz0kTu/concat.1.b.vcf.gz
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob /tmp/tEeZNgWzTt/concat.1.a.vcf.gz /tmp/tEeZNgWzTt/concat.1.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob /tmp/CSPvpz0kTu/concat.1.a.vcf.gz /tmp/CSPvpz0kTu/concat.1.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version /tmp/tEeZNgWzTt/concat.1.a.bcf /tmp/tEeZNgWzTt/concat.1.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version /tmp/CSPvpz0kTu/concat.1.a.bcf /tmp/CSPvpz0kTu/concat.1.b.bcf
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob /tmp/tEeZNgWzTt/concat.1.a.bcf /tmp/tEeZNgWzTt/concat.1.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob /tmp/CSPvpz0kTu/concat.1.a.bcf /tmp/CSPvpz0kTu/concat.1.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -a /tmp/tEeZNgWzTt/concat.2.a.vcf.gz /tmp/tEeZNgWzTt/concat.2.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -a /tmp/CSPvpz0kTu/concat.2.a.vcf.gz /tmp/CSPvpz0kTu/concat.2.b.vcf.gz
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -a /tmp/tEeZNgWzTt/concat.2.a.vcf.gz /tmp/tEeZNgWzTt/concat.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -a /tmp/CSPvpz0kTu/concat.2.a.vcf.gz /tmp/CSPvpz0kTu/concat.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -a /tmp/tEeZNgWzTt/concat.2.a.bcf /tmp/tEeZNgWzTt/concat.2.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -a /tmp/CSPvpz0kTu/concat.2.a.bcf /tmp/CSPvpz0kTu/concat.2.b.bcf
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -a /tmp/tEeZNgWzTt/concat.2.a.bcf /tmp/tEeZNgWzTt/concat.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -a /tmp/CSPvpz0kTu/concat.2.a.bcf /tmp/CSPvpz0kTu/concat.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -aD /tmp/tEeZNgWzTt/concat.2.a.vcf.gz /tmp/tEeZNgWzTt/concat.2.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -aD /tmp/CSPvpz0kTu/concat.2.a.vcf.gz /tmp/CSPvpz0kTu/concat.2.b.vcf.gz
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -aD /tmp/tEeZNgWzTt/concat.2.a.vcf.gz /tmp/tEeZNgWzTt/concat.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -aD /tmp/CSPvpz0kTu/concat.2.a.vcf.gz /tmp/CSPvpz0kTu/concat.2.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -aD /tmp/tEeZNgWzTt/concat.2.a.bcf /tmp/tEeZNgWzTt/concat.2.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -aD /tmp/CSPvpz0kTu/concat.2.a.bcf /tmp/CSPvpz0kTu/concat.2.b.bcf
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -aD /tmp/tEeZNgWzTt/concat.2.a.bcf /tmp/tEeZNgWzTt/concat.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -aD /tmp/CSPvpz0kTu/concat.2.a.bcf /tmp/CSPvpz0kTu/concat.2.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-warn /tmp/tEeZNgWzTt/concat.3.a.vcf.gz /tmp/tEeZNgWzTt/concat.3.b.vcf.gz /tmp/tEeZNgWzTt/concat.3.0.vcf.gz /tmp/tEeZNgWzTt/concat.3.c.vcf.gz /tmp/tEeZNgWzTt/concat.3.d.vcf.gz /tmp/tEeZNgWzTt/concat.3.e.vcf.gz /tmp/tEeZNgWzTt/concat.3.f.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-warn /tmp/CSPvpz0kTu/concat.3.a.vcf.gz /tmp/CSPvpz0kTu/concat.3.b.vcf.gz /tmp/CSPvpz0kTu/concat.3.0.vcf.gz /tmp/CSPvpz0kTu/concat.3.c.vcf.gz /tmp/CSPvpz0kTu/concat.3.d.vcf.gz /tmp/CSPvpz0kTu/concat.3.e.vcf.gz /tmp/CSPvpz0kTu/concat.3.f.vcf.gz
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-warn /tmp/tEeZNgWzTt/concat.3.a.vcf.gz /tmp/tEeZNgWzTt/concat.3.b.vcf.gz /tmp/tEeZNgWzTt/concat.3.0.vcf.gz /tmp/tEeZNgWzTt/concat.3.c.vcf.gz /tmp/tEeZNgWzTt/concat.3.d.vcf.gz /tmp/tEeZNgWzTt/concat.3.e.vcf.gz /tmp/tEeZNgWzTt/concat.3.f.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-warn /tmp/CSPvpz0kTu/concat.3.a.vcf.gz /tmp/CSPvpz0kTu/concat.3.b.vcf.gz /tmp/CSPvpz0kTu/concat.3.0.vcf.gz /tmp/CSPvpz0kTu/concat.3.c.vcf.gz /tmp/CSPvpz0kTu/concat.3.d.vcf.gz /tmp/CSPvpz0kTu/concat.3.e.vcf.gz /tmp/CSPvpz0kTu/concat.3.f.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-warn /tmp/tEeZNgWzTt/concat.3.a.bcf /tmp/tEeZNgWzTt/concat.3.b.bcf /tmp/tEeZNgWzTt/concat.3.0.bcf /tmp/tEeZNgWzTt/concat.3.c.bcf /tmp/tEeZNgWzTt/concat.3.d.bcf /tmp/tEeZNgWzTt/concat.3.e.bcf /tmp/tEeZNgWzTt/concat.3.f.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-warn /tmp/CSPvpz0kTu/concat.3.a.bcf /tmp/CSPvpz0kTu/concat.3.b.bcf /tmp/CSPvpz0kTu/concat.3.0.bcf /tmp/CSPvpz0kTu/concat.3.c.bcf /tmp/CSPvpz0kTu/concat.3.d.bcf /tmp/CSPvpz0kTu/concat.3.e.bcf /tmp/CSPvpz0kTu/concat.3.f.bcf
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-warn /tmp/tEeZNgWzTt/concat.3.a.bcf /tmp/tEeZNgWzTt/concat.3.b.bcf /tmp/tEeZNgWzTt/concat.3.0.bcf /tmp/tEeZNgWzTt/concat.3.c.bcf /tmp/tEeZNgWzTt/concat.3.d.bcf /tmp/tEeZNgWzTt/concat.3.e.bcf /tmp/tEeZNgWzTt/concat.3.f.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
-Random seed for test_naive_concat: 1559610918
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-warn /tmp/CSPvpz0kTu/concat.3.a.bcf /tmp/CSPvpz0kTu/concat.3.b.bcf /tmp/CSPvpz0kTu/concat.3.0.bcf /tmp/CSPvpz0kTu/concat.3.c.bcf /tmp/CSPvpz0kTu/concat.3.d.bcf /tmp/CSPvpz0kTu/concat.3.e.bcf /tmp/CSPvpz0kTu/concat.3.f.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+Random seed for test_naive_concat: 401155822
.. ok
test_naive_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --naive-force /tmp/tEeZNgWzTt/naive_concat.0.bcf /tmp/tEeZNgWzTt/naive_concat.1.bcf /tmp/tEeZNgWzTt/naive_concat.2.bcf /tmp/tEeZNgWzTt/naive_concat.3.bcf /tmp/tEeZNgWzTt/naive_concat.4.bcf /tmp/tEeZNgWzTt/naive_concat.5.bcf /tmp/tEeZNgWzTt/naive_concat.6.bcf /tmp/tEeZNgWzTt/naive_concat.7.bcf /tmp/tEeZNgWzTt/naive_concat.8.bcf /tmp/tEeZNgWzTt/naive_concat.9.bcf | /build/reproducible-path/bcftools-1.21/bcftools view -H
+ /build/reproducible-path/bcftools-1.21/bcftools concat --naive-force /tmp/CSPvpz0kTu/naive_concat.0.bcf /tmp/CSPvpz0kTu/naive_concat.1.bcf /tmp/CSPvpz0kTu/naive_concat.2.bcf /tmp/CSPvpz0kTu/naive_concat.3.bcf /tmp/CSPvpz0kTu/naive_concat.4.bcf /tmp/CSPvpz0kTu/naive_concat.5.bcf /tmp/CSPvpz0kTu/naive_concat.6.bcf /tmp/CSPvpz0kTu/naive_concat.7.bcf /tmp/CSPvpz0kTu/naive_concat.8.bcf /tmp/CSPvpz0kTu/naive_concat.9.bcf | /build/reproducible-path/bcftools-1.21/bcftools view -H
.. ok
test_naive_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --naive /tmp/tEeZNgWzTt/naive_concat.0.vcf.gz /tmp/tEeZNgWzTt/naive_concat.1.vcf.gz /tmp/tEeZNgWzTt/naive_concat.2.vcf.gz /tmp/tEeZNgWzTt/naive_concat.3.vcf.gz /tmp/tEeZNgWzTt/naive_concat.4.vcf.gz /tmp/tEeZNgWzTt/naive_concat.5.vcf.gz /tmp/tEeZNgWzTt/naive_concat.6.vcf.gz /tmp/tEeZNgWzTt/naive_concat.7.vcf.gz /tmp/tEeZNgWzTt/naive_concat.8.vcf.gz /tmp/tEeZNgWzTt/naive_concat.9.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view -H
+ /build/reproducible-path/bcftools-1.21/bcftools concat --naive /tmp/CSPvpz0kTu/naive_concat.0.vcf.gz /tmp/CSPvpz0kTu/naive_concat.1.vcf.gz /tmp/CSPvpz0kTu/naive_concat.2.vcf.gz /tmp/CSPvpz0kTu/naive_concat.3.vcf.gz /tmp/CSPvpz0kTu/naive_concat.4.vcf.gz /tmp/CSPvpz0kTu/naive_concat.5.vcf.gz /tmp/CSPvpz0kTu/naive_concat.6.vcf.gz /tmp/CSPvpz0kTu/naive_concat.7.vcf.gz /tmp/CSPvpz0kTu/naive_concat.8.vcf.gz /tmp/CSPvpz0kTu/naive_concat.9.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view -H
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l /tmp/tEeZNgWzTt/concat.4.a.vcf.gz /tmp/tEeZNgWzTt/concat.4.b.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l /tmp/CSPvpz0kTu/concat.4.a.vcf.gz /tmp/CSPvpz0kTu/concat.4.b.vcf.gz
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l /tmp/tEeZNgWzTt/concat.4.a.vcf.gz /tmp/tEeZNgWzTt/concat.4.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l /tmp/CSPvpz0kTu/concat.4.a.vcf.gz /tmp/CSPvpz0kTu/concat.4.b.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l /tmp/tEeZNgWzTt/concat.4.a.bcf /tmp/tEeZNgWzTt/concat.4.b.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l /tmp/CSPvpz0kTu/concat.4.a.bcf /tmp/CSPvpz0kTu/concat.4.b.bcf
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l /tmp/tEeZNgWzTt/concat.4.a.bcf /tmp/tEeZNgWzTt/concat.4.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l /tmp/CSPvpz0kTu/concat.4.a.bcf /tmp/CSPvpz0kTu/concat.4.b.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-warn /tmp/tEeZNgWzTt/concat.5.a.vcf.gz /tmp/tEeZNgWzTt/concat.5.b.vcf.gz /tmp/tEeZNgWzTt/concat.5.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-warn /tmp/CSPvpz0kTu/concat.5.a.vcf.gz /tmp/CSPvpz0kTu/concat.5.b.vcf.gz /tmp/CSPvpz0kTu/concat.5.c.vcf.gz
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-warn /tmp/tEeZNgWzTt/concat.5.a.vcf.gz /tmp/tEeZNgWzTt/concat.5.b.vcf.gz /tmp/tEeZNgWzTt/concat.5.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-warn /tmp/CSPvpz0kTu/concat.5.a.vcf.gz /tmp/CSPvpz0kTu/concat.5.b.vcf.gz /tmp/CSPvpz0kTu/concat.5.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-warn /tmp/tEeZNgWzTt/concat.5.a.bcf /tmp/tEeZNgWzTt/concat.5.b.bcf /tmp/tEeZNgWzTt/concat.5.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-warn /tmp/CSPvpz0kTu/concat.5.a.bcf /tmp/CSPvpz0kTu/concat.5.b.bcf /tmp/CSPvpz0kTu/concat.5.c.bcf
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-warn /tmp/tEeZNgWzTt/concat.5.a.bcf /tmp/tEeZNgWzTt/concat.5.b.bcf /tmp/tEeZNgWzTt/concat.5.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-warn /tmp/CSPvpz0kTu/concat.5.a.bcf /tmp/CSPvpz0kTu/concat.5.b.bcf /tmp/CSPvpz0kTu/concat.5.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-force /tmp/tEeZNgWzTt/concat.5.a.bcf /tmp/tEeZNgWzTt/concat.5.b.bcf /tmp/tEeZNgWzTt/concat.5.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -l --ligate-force /tmp/CSPvpz0kTu/concat.5.a.bcf /tmp/CSPvpz0kTu/concat.5.b.bcf /tmp/CSPvpz0kTu/concat.5.c.bcf
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-force /tmp/tEeZNgWzTt/concat.5.a.bcf /tmp/tEeZNgWzTt/concat.5.b.bcf /tmp/tEeZNgWzTt/concat.5.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -l --ligate-force /tmp/CSPvpz0kTu/concat.5.a.bcf /tmp/CSPvpz0kTu/concat.5.b.bcf /tmp/CSPvpz0kTu/concat.5.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -G -a -D /tmp/tEeZNgWzTt/concat.5.a.vcf.gz /tmp/tEeZNgWzTt/concat.5.b.vcf.gz /tmp/tEeZNgWzTt/concat.5.c.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -G -a -D /tmp/CSPvpz0kTu/concat.5.a.vcf.gz /tmp/CSPvpz0kTu/concat.5.b.vcf.gz /tmp/CSPvpz0kTu/concat.5.c.vcf.gz
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -G -a -D /tmp/tEeZNgWzTt/concat.5.a.vcf.gz /tmp/tEeZNgWzTt/concat.5.b.vcf.gz /tmp/tEeZNgWzTt/concat.5.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -G -a -D /tmp/CSPvpz0kTu/concat.5.a.vcf.gz /tmp/CSPvpz0kTu/concat.5.b.vcf.gz /tmp/CSPvpz0kTu/concat.5.c.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -G -a -D /tmp/tEeZNgWzTt/concat.5.a.bcf /tmp/tEeZNgWzTt/concat.5.b.bcf /tmp/tEeZNgWzTt/concat.5.c.bcf
+ /build/reproducible-path/bcftools-1.21/bcftools concat --no-version -G -a -D /tmp/CSPvpz0kTu/concat.5.a.bcf /tmp/CSPvpz0kTu/concat.5.b.bcf /tmp/CSPvpz0kTu/concat.5.c.bcf
.. ok
test_vcf_concat:
- /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -G -a -D /tmp/tEeZNgWzTt/concat.5.a.bcf /tmp/tEeZNgWzTt/concat.5.b.bcf /tmp/tEeZNgWzTt/concat.5.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
+ /build/reproducible-path/bcftools-1.21/bcftools concat -Ob -G -a -D /tmp/CSPvpz0kTu/concat.5.a.bcf /tmp/CSPvpz0kTu/concat.5.b.bcf /tmp/CSPvpz0kTu/concat.5.c.bcf | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools_
.. ok
test_vcf_reheader:
@@ -5921,19 +5957,19 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.hdr /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.hdr /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.hdr | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.hdr | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.hdr /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.hdr /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.hdr | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.hdr | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
@@ -5945,19 +5981,19 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
@@ -5969,19 +6005,19 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples2 /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples2 /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples2 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples2 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples2 /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples2 /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples2 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples2 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
@@ -5993,19 +6029,19 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples3 /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples3 /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples3 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples3 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples3 /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples3 /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples3 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples3 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
@@ -6017,19 +6053,19 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples4 /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples4 /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples4 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples4 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples4 /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples4 /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples4 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/reheader.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -s /build/reproducible-path/bcftools-1.21/test/reheader.samples4 | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
@@ -6041,19 +6077,19 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.empty.hdr /tmp/tEeZNgWzTt/empty.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.empty.hdr /tmp/CSPvpz0kTu/empty.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/empty.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.empty.hdr | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/empty.bcf | /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.empty.hdr | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.empty.hdr /tmp/tEeZNgWzTt/empty.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.empty.hdr /tmp/CSPvpz0kTu/empty.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- cat /tmp/tEeZNgWzTt/empty.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.empty.hdr | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ cat /tmp/CSPvpz0kTu/empty.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.empty.hdr | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
@@ -6061,11 +6097,11 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -f /build/reproducible-path/bcftools-1.21/test/reheader.fai /tmp/tEeZNgWzTt/reheader.2.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -f /build/reproducible-path/bcftools-1.21/test/reheader.fai /tmp/CSPvpz0kTu/reheader.2.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -f /build/reproducible-path/bcftools-1.21/test/reheader.fai /tmp/tEeZNgWzTt/reheader.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -f /build/reproducible-path/bcftools-1.21/test/reheader.fai /tmp/CSPvpz0kTu/reheader.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
@@ -6073,11 +6109,11 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.2.hdr -f /build/reproducible-path/bcftools-1.21/test/reheader.fai /tmp/tEeZNgWzTt/reheader.2.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.2.hdr -f /build/reproducible-path/bcftools-1.21/test/reheader.fai /tmp/CSPvpz0kTu/reheader.2.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.2.hdr -f /build/reproducible-path/bcftools-1.21/test/reheader.fai /tmp/tEeZNgWzTt/reheader.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -h /build/reproducible-path/bcftools-1.21/test/reheader.2.hdr -f /build/reproducible-path/bcftools-1.21/test/reheader.fai /tmp/CSPvpz0kTu/reheader.2.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
@@ -6085,59 +6121,59 @@
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -f /build/reproducible-path/bcftools-1.21/test/reheader.3.fai /tmp/tEeZNgWzTt/reheader.3.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -f /build/reproducible-path/bcftools-1.21/test/reheader.3.fai /tmp/CSPvpz0kTu/reheader.3.bcf | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_vcf_reheader:
- /build/reproducible-path/bcftools-1.21/bcftools reheader -f /build/reproducible-path/bcftools-1.21/test/reheader.3.fai /tmp/tEeZNgWzTt/reheader.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
+ /build/reproducible-path/bcftools-1.21/bcftools reheader -f /build/reproducible-path/bcftools-1.21/test/reheader.3.fai /tmp/CSPvpz0kTu/reheader.3.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools view --no-version
.. ok
test_rename_chrs:
- /build/reproducible-path/bcftools-1.21/bcftools annotate --rename-chrs /tmp/tEeZNgWzTt/rename.map -Ov /tmp/tEeZNgWzTt/annotate.bcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\n'
+ /build/reproducible-path/bcftools-1.21/bcftools annotate --rename-chrs /tmp/CSPvpz0kTu/rename.map -Ov /tmp/CSPvpz0kTu/annotate.bcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\n'
.. ok
test_rename_chrs:
- /build/reproducible-path/bcftools-1.21/bcftools annotate --rename-chrs /tmp/tEeZNgWzTt/rename.map -Ob /tmp/tEeZNgWzTt/annotate.bcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\n'
+ /build/reproducible-path/bcftools-1.21/bcftools annotate --rename-chrs /tmp/CSPvpz0kTu/rename.map -Ob /tmp/CSPvpz0kTu/annotate.bcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\n'
.. ok
test_rename_chrs:
- /build/reproducible-path/bcftools-1.21/bcftools annotate --rename-chrs /tmp/tEeZNgWzTt/rename.map -Ov /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\n'
+ /build/reproducible-path/bcftools-1.21/bcftools annotate --rename-chrs /tmp/CSPvpz0kTu/rename.map -Ov /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\n'
.. ok
test_rename_chrs:
- /build/reproducible-path/bcftools-1.21/bcftools annotate --rename-chrs /tmp/tEeZNgWzTt/rename.map -Ob /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\n'
+ /build/reproducible-path/bcftools-1.21/bcftools annotate --rename-chrs /tmp/CSPvpz0kTu/rename.map -Ob /build/reproducible-path/bcftools-1.21/test/annotate.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'%CHROM\t%POS\n'
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,.
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,.
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids --3N6 /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids --3N6 /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids --3N6
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids --3N6
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,-
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,-
.. ok
test_vcf_convert_hs2vcf:
@@ -6181,99 +6217,99 @@
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --tag PL /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --tag PL /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --tag PL
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --tag PL
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --tag PL /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --tag PL /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --tag PL
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --tag PL
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids /tmp/tEeZNgWzTt/check.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids /tmp/CSPvpz0kTu/check.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --vcf-ids
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --vcf-ids /tmp/tEeZNgWzTt/check.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --vcf-ids /tmp/CSPvpz0kTu/check.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --vcf-ids
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --vcf-ids
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --3N6 /tmp/tEeZNgWzTt/check.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --3N6 /tmp/CSPvpz0kTu/check.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --3N6
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --3N6
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --3N6 /tmp/tEeZNgWzTt/check.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --3N6 /tmp/CSPvpz0kTu/check.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --3N6
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --3N6
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --3N6 --vcf-ids /tmp/tEeZNgWzTt/check.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --3N6 --vcf-ids /tmp/CSPvpz0kTu/check.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --3N6 --vcf-ids
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g -,. --3N6 --vcf-ids
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --3N6 --vcf-ids /tmp/tEeZNgWzTt/check.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --3N6 --vcf-ids /tmp/CSPvpz0kTu/check.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --3N6 --vcf-ids
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/check.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -g .,- --3N6 --vcf-ids
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -h -,.,. /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -h -,.,. /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -h -,.,.
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -h -,.,.
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -h .,-,. /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -h .,-,. /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -h .,-,.
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -h .,-,.
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -h .,-,. --vcf-ids /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -h .,-,. --vcf-ids /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -h .,-,. --vcf-ids
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -h .,-,. --vcf-ids
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert -h .,.,- /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert -h .,.,- /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -h .,.,-
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert -h .,.,-
.. ok
test_vcf_convert_hls2vcf:
@@ -6285,35 +6321,35 @@
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert --haplegendsample -,.,. /tmp/tEeZNgWzTt/convert.hap-missing.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert --haplegendsample -,.,. /tmp/CSPvpz0kTu/convert.hap-missing.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.hap-missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --haplegendsample -,.,.
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.hap-missing.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --haplegendsample -,.,.
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample -,. /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample -,. /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample -,.
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample -,.
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample -,. --vcf-ids /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample -,. --vcf-ids /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample -,. --vcf-ids
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample -,. --vcf-ids
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample .,- /tmp/tEeZNgWzTt/convert.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample .,- /tmp/CSPvpz0kTu/convert.vcf.gz
.. ok
test_vcf_convert:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample .,-
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --hapsample .,-
.. ok
test_vcf_convert_hs2vcf:
@@ -6333,11 +6369,11 @@
.. ok
test_vcf_convert_gvcf:
- /build/reproducible-path/bcftools-1.21/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/tEeZNgWzTt/convert.gvcf.vcf.gz
+ /build/reproducible-path/bcftools-1.21/bcftools convert --no-version --gvcf2vcf -i'FILTER="PASS"' -f /build/reproducible-path/bcftools-1.21/test/gvcf.fa /tmp/CSPvpz0kTu/convert.gvcf.vcf.gz
.. ok
test_vcf_convert_gvcf:
- /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/tEeZNgWzTt/convert.gvcf.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --gvcf2vcf -i'FILTER="PASS"' -f /build/reproducible-path/bcftools-1.21/test/gvcf.fa | grep -v ^##bcftools
+ /build/reproducible-path/bcftools-1.21/bcftools view -Ob /tmp/CSPvpz0kTu/convert.gvcf.vcf.gz | /build/reproducible-path/bcftools-1.21/bcftools convert --gvcf2vcf -i'FILTER="PASS"' -f /build/reproducible-path/bcftools-1.21/test/gvcf.fa | grep -v ^##bcftools
.. ok
test_vcf_convert_tsv2vcf:
@@ -6357,499 +6393,499 @@
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.overlaps.1.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.overlaps.1.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.overlaps.1.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.overlaps.1.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.overlaps.1.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s B
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.overlaps.1.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s B
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.overlaps.1.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s B
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.overlaps.1.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s B
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.overlaps.1.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s A -a N
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.overlaps.1.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s A -a N
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.overlaps.1.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s A -a N
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.overlaps.1.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s A -a N
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.overlaps.1.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s B -a N
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.overlaps.1.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s B -a N
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.overlaps.1.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s B -a N
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.overlaps.1.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.overlaps.1.fa -s B -a N
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.beyond.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.beyond.fa
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.beyond.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.beyond.fa
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.beyond.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.beyond.fa
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.beyond.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.beyond.fa
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
.. ok
test_vcf_consensus_chain:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab -c /tmp/tEeZNgWzTt/consensus.1.chain.new >/dev/null; cat /tmp/tEeZNgWzTt/consensus.1.chain.new
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab -c /tmp/CSPvpz0kTu/consensus.1.chain.new >/dev/null; cat /tmp/CSPvpz0kTu/consensus.1.chain.new
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1 -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1 -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1 -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1 -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
.. ok
test_vcf_consensus_chain:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1 -m /build/reproducible-path/bcftools-1.21/test/consensus.tab -c /tmp/tEeZNgWzTt/consensus.2.chain.new >/dev/null; cat /tmp/tEeZNgWzTt/consensus.2.chain.new
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1 -m /build/reproducible-path/bcftools-1.21/test/consensus.tab -c /tmp/CSPvpz0kTu/consensus.2.chain.new >/dev/null; cat /tmp/CSPvpz0kTu/consensus.2.chain.new
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -I -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -I -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -I -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -I -s - -m /build/reproducible-path/bcftools-1.21/test/consensus.tab
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -I -m /build/reproducible-path/bcftools-1.21/test/consensus.tab --mask-with X -m /build/reproducible-path/bcftools-1.21/test/consensus.tab --mask-with lc
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -I -m /build/reproducible-path/bcftools-1.21/test/consensus.tab --mask-with X -m /build/reproducible-path/bcftools-1.21/test/consensus.tab --mask-with lc
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -I -m /build/reproducible-path/bcftools-1.21/test/consensus.tab --mask-with X -m /build/reproducible-path/bcftools-1.21/test/consensus.tab --mask-with lc
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -I -m /build/reproducible-path/bcftools-1.21/test/consensus.tab --mask-with X -m /build/reproducible-path/bcftools-1.21/test/consensus.tab --mask-with lc
.. ok
test_vcf_consensus_chain:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -I -m /build/reproducible-path/bcftools-1.21/test/consensus.tab -c /tmp/tEeZNgWzTt/consensus.3.chain.new >/dev/null; cat /tmp/tEeZNgWzTt/consensus.3.chain.new
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -I -m /build/reproducible-path/bcftools-1.21/test/consensus.tab -c /tmp/CSPvpz0kTu/consensus.3.chain.new >/dev/null; cat /tmp/CSPvpz0kTu/consensus.3.chain.new
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1
.. ok
test_vcf_consensus_chain:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1 -c /tmp/tEeZNgWzTt/consensus.4.chain.new >/dev/null; cat /tmp/tEeZNgWzTt/consensus.4.chain.new
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H 1 -c /tmp/CSPvpz0kTu/consensus.4.chain.new >/dev/null; cat /tmp/CSPvpz0kTu/consensus.4.chain.new
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 1
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 1
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus2.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 1
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus2.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 1
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus2.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus2.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus2.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/empty.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/empty.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/empty.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/empty.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2 -M "?"
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2 -M "?"
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus3.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2 -M "?"
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus3.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2 -M "?"
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2 -M "?" -p xx_
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus3.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2 -M "?" -p xx_
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus3.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2 -M "?" -p xx_
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus3.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -H 2 -M "?" -p xx_
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus4.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus4.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus4.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus4.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus5.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus5.fa --haplotype LA
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus5.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus5.fa --haplotype LA
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus5.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus5.fa --haplotype LA
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus5.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus5.fa --haplotype LA
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus6.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus6.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus6.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus6.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus6.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus6.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus6.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus6.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 2
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 2
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 2
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 2
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 4
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 4
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 4
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 4
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 2pIu
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 2pIu
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 2pIu
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 2pIu
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 4pIu
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 4pIu
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 4pIu
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 4pIu
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 1
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 1
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 1
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 1
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 3
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 3
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 3
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 3
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 1pIu
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 1pIu
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 1pIu
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 1pIu
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 3pIu
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 3pIu
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 3pIu
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus7.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus7.fa -H 3pIu
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a .
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a .
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a .
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a .
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -i 'type="snp" || type="ref"'
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -i 'ALT!="<DEL>"'
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -e 'MinDP>15'
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -e 'MinDP>15'
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -e 'MinDP>15'
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -e 'MinDP>15'
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -e 'MinDP<15'
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -e 'MinDP<15'
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -e 'MinDP<15'
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus8.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -a . -e 'MinDP<15'
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.9.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.9.1.fa -H A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.9.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.9.1.fa -H A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.9.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.9.1.fa -H A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.9.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.9.1.fa -H A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.9.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.9.2.fa -H A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.9.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.9.2.fa -H A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.9.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.9.2.fa -H A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.9.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.9.2.fa -H A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.10.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.9.1.fa -H A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.10.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.9.1.fa -H A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.10.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.9.1.fa -H A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.10.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.9.1.fa -H A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.10.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.9.2.fa -H A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.10.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.9.2.fa -H A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.10.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.9.2.fa -H A
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.10.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.9.2.fa -H A
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.11.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.11.fa -s smpl
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.11.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.11.fa -s smpl
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.11.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.11.fa -s smpl
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.11.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.11.fa -s smpl
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.11.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.11.fa -s smpl -a N
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.11.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.11.fa -s smpl -a N
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.11.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.11.fa -s smpl -a N
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.11.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.11.fa -s smpl -a N
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.12.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.12.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.12.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.12.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.13.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.13.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.13.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.13.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.13.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.13.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.13.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.13.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.14.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.14.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.14.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.14.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.14.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.14.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.14.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.14.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.12.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s - --mark-del - --mark-ins uc --mark-snv uc
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.12.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s - --mark-del - --mark-ins uc --mark-snv uc
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.12.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s - --mark-del - --mark-ins uc --mark-snv uc
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.12.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s - --mark-del - --mark-ins uc --mark-snv uc
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.12.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s - --mark-del - --mark-ins + --mark-snv :
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.12.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s - --mark-del - --mark-ins + --mark-snv :
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.12.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s - --mark-del - --mark-ins + --mark-snv :
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.12.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.12.fa -s - --mark-del - --mark-ins + --mark-snv :
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.15.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.15.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.15.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.15.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.15.fa -H I --mark-ins lc --mark-snv lc
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.16.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -I
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.16.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -I
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.16.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -I
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.16.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -s - -I
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.16.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H I
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.16.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H I
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.16.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H I
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.16.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.fa -H I
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.17.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -s - -M N -m /build/reproducible-path/bcftools-1.21/test/consensus.17.bed
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.17.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -s - -M N -m /build/reproducible-path/bcftools-1.21/test/consensus.17.bed
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.17.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -s - -M N -m /build/reproducible-path/bcftools-1.21/test/consensus.17.bed
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.17.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus2.fa -s - -M N -m /build/reproducible-path/bcftools-1.21/test/consensus.17.bed
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.18.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.18.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.18.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.18.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.18.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.18.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.18.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.18.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.19.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.19.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.19.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.19.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.19.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.19.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.19.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.19.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.20.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.20.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.20.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -s -
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.20.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -s -
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.20.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.20.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.20.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.20.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.20.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -M . -s b
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.20.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -M . -s b
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.20.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -M . -s b
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.20.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -M . -s b
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.20.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -M . -s a
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.20.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -M . -s a
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.20.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -M . -s a
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.20.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.20.fa -M . -s a
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.21.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.21.fa
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.21.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.21.fa
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.21.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.21.fa
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.21.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.21.fa
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 0 --mark-del .
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 0 --mark-del .
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 0 --mark-del .
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 0 --mark-del .
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 1 --mark-del .
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 1 --mark-del .
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 1 --mark-del .
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 1 --mark-del .
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 2 --mark-del .
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 2 --mark-del .
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 2 --mark-del .
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 2 --mark-del .
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 0
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 0
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 0
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 0
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 1
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 1
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 1
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 1
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 2
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.vcf.gz -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 2
.. ok
test_vcf_consensus:
- /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/tEeZNgWzTt/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 2
+ /build/reproducible-path/bcftools-1.21/bcftools consensus /tmp/CSPvpz0kTu/consensus.22.bcf -f /build/reproducible-path/bcftools-1.21/test/consensus.22.fa --regions-overlap 2
.. ok
test_mpileup:
@@ -6861,11 +6897,11 @@
.. ok
test_mpileup:
- /build/reproducible-path/bcftools-1.21/bcftools mpileup -r17:100-150 -a -AD -f /build/reproducible-path/bcftools-1.21/test/mpileup/mpileup.ref.fa -b /tmp/tEeZNgWzTt/mpileup.bam.list --no-version | grep -v ^##reference
+ /build/reproducible-path/bcftools-1.21/bcftools mpileup -r17:100-150 -a -AD -f /build/reproducible-path/bcftools-1.21/test/mpileup/mpileup.ref.fa -b /tmp/CSPvpz0kTu/mpileup.bam.list --no-version | grep -v ^##reference
.. ok
test_mpileup:
- /build/reproducible-path/bcftools-1.21/bcftools mpileup -r17:100-150 -a -AD -f /build/reproducible-path/bcftools-1.21/test/mpileup/mpileup.ref.fa -Ob -b /tmp/tEeZNgWzTt/mpileup.bam.urllist | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools | grep -v ^##reference
+ /build/reproducible-path/bcftools-1.21/bcftools mpileup -r17:100-150 -a -AD -f /build/reproducible-path/bcftools-1.21/test/mpileup/mpileup.ref.fa -Ob -b /tmp/CSPvpz0kTu/mpileup.bam.urllist | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools | grep -v ^##reference
.. ok
test_mpileup:
@@ -6877,11 +6913,11 @@
.. ok
test_mpileup:
- /build/reproducible-path/bcftools-1.21/bcftools mpileup -r17:100-150 -a -AD -f /build/reproducible-path/bcftools-1.21/test/mpileup/mpileup.ref.fa -b /tmp/tEeZNgWzTt/mpileup.cram.list --no-version | grep -v ^##reference
+ /build/reproducible-path/bcftools-1.21/bcftools mpileup -r17:100-150 -a -AD -f /build/reproducible-path/bcftools-1.21/test/mpileup/mpileup.ref.fa -b /tmp/CSPvpz0kTu/mpileup.cram.list --no-version | grep -v ^##reference
.. ok
test_mpileup:
- /build/reproducible-path/bcftools-1.21/bcftools mpileup -r17:100-150 -a -AD -f /build/reproducible-path/bcftools-1.21/test/mpileup/mpileup.ref.fa -Ob -b /tmp/tEeZNgWzTt/mpileup.cram.urllist | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools | grep -v ^##reference
+ /build/reproducible-path/bcftools-1.21/bcftools mpileup -r17:100-150 -a -AD -f /build/reproducible-path/bcftools-1.21/test/mpileup/mpileup.ref.fa -Ob -b /tmp/CSPvpz0kTu/mpileup.cram.urllist | /build/reproducible-path/bcftools-1.21/bcftools view | grep -v ^##bcftools | grep -v ^##reference
.. ok
test_mpileup:
@@ -7429,283 +7465,283 @@
.. ok
test_csq_real:
- cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009 && /build/reproducible-path/bcftools-1.21/bcftools csq -lb -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000000000 && /build/reproducible-path/bcftools-1.21/bcftools csq -p a -f ENST00000000000.fa -g ENST00000000000.gff upstream-stop.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%SAMPLE\t%GT\t%TBCSQ\n]' | ../sort-csq -q
.. ok
test_csq_real:
- cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009 && /build/reproducible-path/bcftools-1.21/bcftools csq -B 5 -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000580206 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.ins-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff compound.ins-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff single.ins-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff single.ins-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff single.del-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-ins.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-ins.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff single.del-ins.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009/ENST00000410009.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009/ENST00000410009.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009/frameshift.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000301246/ENST00000301246.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000301246/ENST00000301246.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000301246/15bp-insert.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009 && /build/reproducible-path/bcftools-1.21/bcftools csq -b -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000263103-INS/ENST00000263103-INS.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000263103-INS/ENST00000263103-INS.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000263103-INS/insertions.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000557788/ENST00000557788.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000557788/ENST00000557788.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000557788/long-overlap-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/EDUMMY0001.fa -g /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/EDUMMY0001.gff /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/starts-with-1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/ENSMUST00000133836 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENSMUST00000133836.fa -g ENSMUST00000133836.gff filter-problem.vcf -i 'FILTER="PASS"' --phase m | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/EDUMMY0001.fa -g /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/EDUMMY0001.gff /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/starts-with-1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420190/ENST00000420190.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420190/ENST00000420190.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420190/abort-in-csq-push.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000357367/ENST00000357367.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000357367/ENST00000357367.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000357367/stop-retained.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000448695/ENST00000448695.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000448695/ENST00000448695.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000448695/syn-and-splice-reg.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420190/ENST00000420190.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420190/ENST00000420190.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420190/abort-in-csq-push.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520868/ENST00000520868.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520868/ENST00000520868.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520868/long-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENSMUST00000121418 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25496' --phase m | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/ENST00000373833.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/ENST00000373833.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/boundary-insertion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENSMUST00000121418 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25500' --phase m | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/ENST00000373833.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/ENST00000373833.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/boundary-insertion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENSMUST00000121418 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25105' --phase m | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414/ENST00000518414.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414/ENST00000518414.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414/incorrect-inframe-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801/ENST00000368801.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801/ENST00000368801.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801/compound-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000571540/ENST00000571540.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000571540/ENST00000571540.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000571540/nmd.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/EMN908947 && /build/reproducible-path/bcftools-1.21/bcftools csq -f EMN908947.fa -g ribosomal-slippage.gff ribosomal-slippage.vcf --force | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/ENST00000318249.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/ENST00000318249.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/EMN908947 && /build/reproducible-path/bcftools-1.21/bcftools csq -f EMN908947.fa -g simple.gff simple.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/ENST00000318249.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/ENST00000318249.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/ENST00000520795.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/ENST00000520795.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/long-inside-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/ENST00000520795.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/ENST00000520795.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/long-inside-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/ENST00000479739.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/ENST00000479739.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/short-cds-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/start-lost-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/ENST00000479739.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/ENST00000479739.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/short-cds-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/ENST00000329454.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/ENST00000329454.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/boundary-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000256452/ENST00000256452.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000256452/ENST00000256452.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000256452/intron.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/ENST00000329454.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/ENST00000329454.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/boundary-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414/ENST00000518414.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414/ENST00000518414.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414/incorrect-inframe-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0002/EDUMMY0002.fa -g /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0002/EDUMMY0002.gff /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0002/boundaries.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/ENST00000329454.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/ENST00000329454.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/boundary-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/EDUMMY0001.fa -g /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/EDUMMY0001.gff /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/starts-with-1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/ENST00000329454.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/ENST00000329454.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000329454/boundary-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/EDUMMY0001.fa -g /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/EDUMMY0001.gff /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0001/starts-with-1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENSG00000173376/ENSG00000173376.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENSG00000173376/ENSG00000173376.gff /build/reproducible-path/bcftools-1.21/test/csq/ENSG00000173376/synon.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame2.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000557788/ENST00000557788.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000557788/ENST00000557788.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000557788/long-overlap-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame2.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000381157/ENST00000381157.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000381157/ENST00000381157.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000381157/haploid-diploid.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/ENST00000573314.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/ENST00000573314.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/ENST00000573314.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/ENST00000573314.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000624631/ENST00000624631.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000624631/ENST00000624631.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000624631/ambiguous.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801.2/ENST00000368801.2.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801.2/ENST00000368801.2.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801.2/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249.2/ENST00000318249.2.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249.2/ENST00000318249.2.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249.2/synonymous-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009 && /build/reproducible-path/bcftools-1.21/bcftools csq -lb -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009 && /build/reproducible-path/bcftools-1.21/bcftools csq -B 5 -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009/ENST00000410009.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009/ENST00000410009.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009/frameshift.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000410009 && /build/reproducible-path/bcftools-1.21/bcftools csq -b -f ENST00000410009.fa -g ENST00000410009.gff frameshift.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000545279/ENST00000545279.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000545279/ENST00000545279.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000545279/splice-region-insert.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573035-bt2212/complex-event.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/ENST00000295641.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/ENST00000295641.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/ENST00000295641.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/ENST00000295641.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000390520/ENST00000390520.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000390520/ENST00000390520.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000390520/deletion-overlap.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000269081/ENST00000269081.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000269081/ENST00000269081.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000269081/stop-gained-not-inframe-insertion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000379416 && /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.del-snp.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-del.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-ins.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-snp.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff single.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/ENST00000543077.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/ENST00000543077.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/ENST00000543077.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/ENST00000543077.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000227471/ENST00000227471.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000227471/ENST00000227471.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000227471/insert-splice-vs-frameshift.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENSMUST00000133836 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENSMUST00000133836.fa -g ENSMUST00000133836.gff filter-problem.vcf -i 'FILTER="PASS"' --phase m | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000409523/ENST00000409523.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000409523/ENST00000409523.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000409523/long-overlapping-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/snps.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/snps.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/insert3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000382647/ENST00000382647.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000382647/ENST00000382647.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000382647/synon-splice-region-insert.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/insert3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/ENST00000303039.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/ENST00000303039.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/not-a-stop.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000400151/ENST00000400151.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000400151/ENST00000400151.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000400151/long-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/ENST00000303039.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/ENST00000303039.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/not-a-stop.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000230048/ENST00000230048.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000230048/ENST00000230048.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000230048/start-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000409523/ENST00000409523.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000409523/ENST00000409523.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000409523/long-overlapping-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000528237/ENST00000528237.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000528237/ENST00000528237.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000528237/retained-stop-incomplete-cds.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/ENST00000573314.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/ENST00000573314.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/ENST00000303039.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/ENST00000303039.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/not-a-stop.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/ENST00000573314.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/ENST00000573314.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573314/incorrect-insertion-overlap.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/ENST00000303039.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/ENST00000303039.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000303039/not-a-stop.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000230048/ENST00000230048.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000230048/ENST00000230048.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000230048/start-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000571540/ENST00000571540.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000571540/ENST00000571540.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000571540/nmd.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/snps.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000413103/ENST00000413103.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000413103/ENST00000413103.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000413103/long-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/snps.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000519442/ENST00000519442.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000519442/ENST00000519442.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000519442/synon-splice-region-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/insert3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/ENST00000378322.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/ENST00000378322.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/end-overlap-tscript.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/ENST00000423372.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000423372/insert3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/ENST00000378322.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/ENST00000378322.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/end-overlap-tscript.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0003/EDUMMY0003.fa -g /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0003/EDUMMY0003.gff /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0003/long-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/start-lost-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000375992/ENST00000375992.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000375992/ENST00000375992.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000375992/incorrect-synon-del-not-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000263103-INS/ENST00000263103-INS.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000263103-INS/ENST00000263103-INS.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000263103-INS/insertions.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/ENST00000218032.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000218032/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000413103/ENST00000413103.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000413103/ENST00000413103.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000413103/long-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/ENST00000542803.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/ENST00000542803.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/splice-region.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/ENST00000295641.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/ENST00000295641.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/ENST00000542803.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/ENST00000542803.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/splice-region.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/ENST00000295641.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/ENST00000295641.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000295641/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/ENST00000536784.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/ENST00000536784.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/ENST00000378322.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/ENST00000378322.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/end-overlap-tscript.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/ENST00000536784.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/ENST00000536784.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/ENST00000378322.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/ENST00000378322.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000378322/end-overlap-tscript.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/ENST00000294661.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/ENST00000294661.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/non-coding-boundary.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/ENST00000542803.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/ENST00000542803.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/splice-region.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/ENST00000294661.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/ENST00000294661.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/non-coding-boundary.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/ENST00000542803.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/ENST00000542803.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000542803/splice-region.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0003/EDUMMY0003.fa -g /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0003/EDUMMY0003.gff /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0003/long-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
@@ -7713,11 +7749,11 @@
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/ENST00000294661.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/ENST00000294661.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/non-coding-boundary.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000422159 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000422159.fa -g ENST00000422159.gff multiallelic.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000422159.fa -g short.gff multiallelic.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/ENST00000294661.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/ENST00000294661.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000294661/non-coding-boundary.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000593942/ENST00000593942.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000593942/ENST00000593942.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000593942/last-codon-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
@@ -7725,163 +7761,163 @@
.. ok
test_csq_real:
- cd /build/reproducible-path/bcftools-1.21/test/csq/ENST00000422159 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000422159.fa -g ENST00000422159.gff multiallelic.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000422159.fa -g short.gff multiallelic.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%GT\t%TBCSQ\n]' | ../sort-csq -q
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0002/EDUMMY0002.fa -g /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0002/EDUMMY0002.gff /build/reproducible-path/bcftools-1.21/test/csq/EDUMMY0002/boundaries.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414-ENST00000521270/valgrind.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame2.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000528237/ENST00000528237.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000528237/ENST00000528237.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000528237/retained-stop-incomplete-cds.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame2.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/ENST00000379416 && /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.del-snp.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-del.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-ins.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff compound.ins-snp.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -B 3 -f ENST00000379416.fa -g ENST00000379416.gff single.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/ENST00000536784.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/ENST00000536784.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor2.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/ENST00000536784.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/ENST00000536784.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000536784/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000436063/ENST00000436063.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000436063/ENST00000436063.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000436063/insert-before-utr.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor8.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/EMN908947 && /build/reproducible-path/bcftools-1.21/bcftools csq -f EMN908947.fa -g ribosomal-slippage.gff ribosomal-slippage.vcf --force | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/EMN908947 && /build/reproducible-path/bcftools-1.21/bcftools csq -f EMN908947.fa -g simple.gff simple.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor7.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000357367/ENST00000357367.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000357367/ENST00000357367.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000357367/stop-retained.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573035-bt2212/ENST00000573035-bt2212.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000573035-bt2212/complex-event.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor6.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249.2/ENST00000318249.2.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249.2/ENST00000318249.2.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249.2/synonymous-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000545279/ENST00000545279.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000545279/ENST00000545279.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000545279/splice-region-insert.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor9.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801/ENST00000368801.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801/ENST00000368801.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801/compound-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000381157/ENST00000381157.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000381157/ENST00000381157.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000381157/haploid-diploid.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%TBCSQ\n]\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000285021/ENST00000285021.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000285021/ENST00000285021.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000285021/stop-gained-inframe-indel.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000400151/ENST00000400151.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000400151/ENST00000400151.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000400151/long-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/ENST00000420670.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/ENST00000420670.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/start-stop-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/ENST00000420670.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/ENST00000420670.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/segfault.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame3.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/ENST00000580206 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.ins-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff compound.ins-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff single.ins-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff single.ins-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff single.del-snv.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g ENST00000580206.gff compound.del-ins.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff compound.del-ins.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n' ; echo ; /build/reproducible-path/bcftools-1.21/bcftools csq -f ENST00000580206.fa -g short.gff single.del-ins.vcf | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000256452/ENST00000256452.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000256452/ENST00000256452.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000256452/intron.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor4.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENSG00000173376/ENSG00000173376.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENSG00000173376/ENSG00000173376.gff /build/reproducible-path/bcftools-1.21/test/csq/ENSG00000173376/synon.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000519442/ENST00000519442.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000519442/ENST00000519442.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000519442/synon-splice-region-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000390520/ENST00000390520.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000390520/ENST00000390520.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000390520/deletion-overlap.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/ENST00000000000 && /build/reproducible-path/bcftools-1.21/bcftools csq -p a -f ENST00000000000.fa -g ENST00000000000.gff upstream-stop.vcf | /build/reproducible-path/bcftools-1.21/bcftools query -f'[%POS\t%REF\t%ALT\t%SAMPLE\t%GT\t%TBCSQ\n]' | ../sort-csq -q
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/frame1.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000269081/ENST00000269081.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000269081/ENST00000269081.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000269081/stop-gained-not-inframe-insertion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/ENST00000543077.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/ENST00000543077.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/ENST00000341065.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000341065/splice-acceptor-donor5.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/ENST00000543077.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/ENST00000543077.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000543077/not-a-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414-ENST00000521270/ENST00000518414-ENST00000521270.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000518414-ENST00000521270/valgrind.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000624631/ENST00000624631.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000624631/ENST00000624631.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000624631/ambiguous.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/ENST00000373833.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/ENST00000373833.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/boundary-insertion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/ENST00000479739.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/ENST00000479739.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/short-cds-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/ENST00000373833.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/ENST00000373833.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000373833/boundary-insertion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/ENST00000479739.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/ENST00000479739.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000479739/short-cds-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000382647/ENST00000382647.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000382647/ENST00000382647.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000382647/synon-splice-region-insert.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000301246/ENST00000301246.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000301246/ENST00000301246.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000301246/15bp-insert.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/ENST00000318249.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/ENST00000318249.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801.2/ENST00000368801.2.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801.2/ENST00000368801.2.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000368801.2/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/ENST00000318249.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/ENST00000318249.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000318249/start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/ENSMUST00000121418 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25500' --phase m | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000448695/ENST00000448695.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000448695/ENST00000448695.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000448695/syn-and-splice-reg.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/ENSMUST00000121418 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25496' --phase m | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000436063/ENST00000436063.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000436063/ENST00000436063.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000436063/insert-before-utr.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/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 /build/reproducible-path/bcftools-1.21/test/csq/ENSMUST00000121418 && /build/reproducible-path/bcftools-1.21/bcftools csq -f ENSMUST00000121418.fa -g ENSMUST00000121418.gff filter-problem.vcf -i 'POS!=25105' --phase m | ../sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%BCSQ\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520868/ENST00000520868.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520868/ENST00000520868.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520868/long-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000593942/ENST00000593942.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000593942/ENST00000593942.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000593942/last-codon-deletion.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000285021/ENST00000285021.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000285021/ENST00000285021.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000285021/stop-gained-inframe-indel.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/ENST00000520795.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/ENST00000520795.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/long-inside-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/ENST00000420670.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/ENST00000420670.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/start-stop-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -l -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/ENST00000520795.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/ENST00000520795.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000520795/long-inside-del.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/ENST00000420670.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/ENST00000420670.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000420670/segfault.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_csq_real:
- /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000227471/ENST00000227471.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000227471/ENST00000227471.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000227471/insert-splice-vs-frameshift.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
+ /build/reproducible-path/bcftools-1.21/bcftools csq -f /build/reproducible-path/bcftools-1.21/test/csq/ENST00000375992/ENST00000375992.fa -g /build/reproducible-path/bcftools-1.21/test/csq/ENST00000375992/ENST00000375992.gff /build/reproducible-path/bcftools-1.21/test/csq/ENST00000375992/incorrect-synon-del-not-start-lost.vcf | /build/reproducible-path/bcftools-1.21/test/csq/sort-csq | /build/reproducible-path/bcftools-1.21/bcftools query -f'%POS\t%REF\t%ALT\t%EXP\n%POS\t%REF\t%ALT\t%BCSQ\n\n'
.. ok
test_roh:
@@ -7913,139 +7949,139 @@
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 --no-HWE-prob /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 --no-HWE-prob /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u GT,GT /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u GT,GT /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u GT,PL /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u GT,PL /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL,GT /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL,GT /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL,PL /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL,PL /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -p s1,s1 /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -p s1,s1 /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 /tmp/tEeZNgWzTt/gtcheck.2.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 /tmp/CSPvpz0kTu/gtcheck.2.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/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/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/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/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -P /build/reproducible-path/bcftools-1.21/test/gtcheck.3.pairs /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -P /build/reproducible-path/bcftools-1.21/test/gtcheck.3.pairs /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 --n-matches 4 /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO | sort
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 --n-matches 4 /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO | sort
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:E,D,C /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:E,D,C /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:E,D,C -u PL /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:E,D,C -u PL /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:B -s gt:D /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:B -s gt:D /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:B -s gt:D -u PL /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:B -s gt:D -u PL /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:B -s gt:D,C /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -s qry:B -s gt:D,C /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -p B,C,B,D /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -p B,C,B,D /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u GT,GT -H /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u GT,GT -H /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u GT,PL -H /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u GT,PL -H /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL,GT -H /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL,GT -H /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL,PL -H /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -u PL,PL -H /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -P /build/reproducible-path/bcftools-1.21/test/gtcheck.4.pairs --distinctive-sites 3 /tmp/tEeZNgWzTt/gtcheck.4.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -P /build/reproducible-path/bcftools-1.21/test/gtcheck.4.pairs --distinctive-sites 3 /tmp/CSPvpz0kTu/gtcheck.4.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -P /build/reproducible-path/bcftools-1.21/test/gtcheck.4.pairs --distinctive-sites 3,1 /tmp/tEeZNgWzTt/gtcheck.4.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -e 0 -P /build/reproducible-path/bcftools-1.21/test/gtcheck.4.pairs --distinctive-sites 3,1 /tmp/CSPvpz0kTu/gtcheck.4.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -u GT -e 30 /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -u GT -e 30 /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -u GT -e 300 /tmp/tEeZNgWzTt/gtcheck.1.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -u GT -e 300 /tmp/CSPvpz0kTu/gtcheck.1.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -u PL -e 30 /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -u PL -e 30 /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck /tmp/tEeZNgWzTt/gtcheck.ntop.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck /tmp/CSPvpz0kTu/gtcheck.ntop.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck --n-matches 2 /tmp/tEeZNgWzTt/gtcheck.ntop.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck --n-matches 2 /tmp/CSPvpz0kTu/gtcheck.ntop.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck /tmp/tEeZNgWzTt/gtcheck.5.vcf.gz -g /tmp/tEeZNgWzTt/gtcheck.5.gts.vcf.gz | grep -v ^# | grep -v Time
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck /tmp/CSPvpz0kTu/gtcheck.5.vcf.gz -g /tmp/CSPvpz0kTu/gtcheck.5.gts.vcf.gz | grep -v ^# | grep -v Time
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -p A,B,B,C /tmp/tEeZNgWzTt/gtcheck.6.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -p A,B,B,C /tmp/CSPvpz0kTu/gtcheck.6.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
- /build/reproducible-path/bcftools-1.21/bcftools gtcheck -t 11:33 -p A,D,A,E,D,E -u GT -e 10 /tmp/tEeZNgWzTt/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
+ /build/reproducible-path/bcftools-1.21/bcftools gtcheck -t 11:33 -p A,D,A,E,D,E -u GT -e 10 /tmp/CSPvpz0kTu/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
@@ -8059,7 +8095,7 @@
create-stamp debian/debhelper-build-stamp
dh_prep
dh_auto_install --destdir=debian/bcftools/
- make -j20 install DESTDIR=/build/reproducible-path/bcftools-1.21/debian/bcftools AM_UPDATE_INFO_DIR=no
+ make -j42 install DESTDIR=/build/reproducible-path/bcftools-1.21/debian/bcftools AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/build/reproducible-path/bcftools-1.21'
mkdir -p -m 755 /build/reproducible-path/bcftools-1.21/debian/bcftools/usr/bin /build/reproducible-path/bcftools-1.21/debian/bcftools/usr/share/man/man1 /build/reproducible-path/bcftools-1.21/debian/bcftools/usr/lib/x86_64-linux-gnu/bcftools
install -p bcftools /build/reproducible-path/bcftools-1.21/debian/bcftools/usr/bin
@@ -8098,8 +8134,8 @@
dpkg-gencontrol: warning: package bcftools: substitution variable ${perl:Depends} unused, but is defined
dh_md5sums
dh_builddeb
-dpkg-deb: building package 'bcftools-dbgsym' in '../bcftools-dbgsym_1.21-1_amd64.deb'.
dpkg-deb: building package 'bcftools' in '../bcftools_1.21-1_amd64.deb'.
+dpkg-deb: building package 'bcftools-dbgsym' in '../bcftools-dbgsym_1.21-1_amd64.deb'.
dpkg-genbuildinfo --build=binary -O../bcftools_1.21-1_amd64.buildinfo
dpkg-genchanges --build=binary -O../bcftools_1.21-1_amd64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
@@ -8107,12 +8143,14 @@
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: including full source code in upload
I: copying local configuration
+I: user script /srv/workspace/pbuilder/812667/tmp/hooks/B01_cleanup starting
+I: user script /srv/workspace/pbuilder/812667/tmp/hooks/B01_cleanup finished
I: unmounting dev/ptmx filesystem
I: unmounting dev/pts filesystem
I: unmounting dev/shm filesystem
I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env
-I: removing directory /srv/workspace/pbuilder/49495 and its subdirectories
-I: Current time: Tue Mar 11 13:29:09 -12 2025
-I: pbuilder-time-stamp: 1741742949
+I: removing directory /srv/workspace/pbuilder/812667 and its subdirectories
+I: Current time: Tue Apr 14 21:53:58 +14 2026
+I: pbuilder-time-stamp: 1776153238