Running as unit: rb-build-amd64_26-24502.service ==================================================================================== Sun Nov 24 11:32:28 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_26) on jenkins, called using "ionos5-amd64 ionos1-amd64" as arguments. Sun Nov 24 11:32:28 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-HMdP1Ipk" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Nov 24 11:32:28 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sun Nov 24 11:32:28 UTC 2024 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-yqPs5L' Sun Nov 24 11:32:28 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sun Nov 24 11:32:28 UTC 2024 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-Xa3oU4' ok, let's check if vcfanno is building anywhere yet… ok, vcfanno is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of vcfanno in unstable on amd64 on jenkins now. 1st build will be done on ionos5-amd64.debian.net. 2nd build will be done on ionos1-amd64.debian.net. ============================================================================= Sun Nov 24 11:32:36 UTC 2024 I: starting to build vcfanno/unstable/amd64 on jenkins on '2024-11-24 11:32' Sun Nov 24 11:32:36 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_26/24502/console.log 1732447956 amd64 unstable vcfanno Sun Nov 24 11:32:36 UTC 2024 I: Downloading source for unstable/vcfanno=0.3.5+ds-2 --2024-11-24 11:32:37-- http://deb.debian.org/debian/pool/main/v/vcfanno/vcfanno_0.3.5%2bds-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2450 (2.4K) [text/prs.lines.tag] Saving to: ‘vcfanno_0.3.5+ds-2.dsc’ 0K .. 100% 327M=0s 2024-11-24 11:32:37 (327 MB/s) - ‘vcfanno_0.3.5+ds-2.dsc’ saved [2450/2450] --2024-11-24 11:32:37-- http://deb.debian.org/debian/pool/main/v/vcfanno/vcfanno_0.3.5%2bds-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2450 (2.4K) [text/prs.lines.tag] Saving to: ‘vcfanno_0.3.5+ds-2.dsc’ 0K .. 100% 327M=0s 2024-11-24 11:32:37 (327 MB/s) - ‘vcfanno_0.3.5+ds-2.dsc’ saved [2450/2450] Sun Nov 24 11:32:37 UTC 2024 I: vcfanno_0.3.5+ds-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: vcfanno Binary: vcfanno, vcfanno-examples Architecture: any all Version: 0.3.5+ds-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Nilesh Patra Homepage: https://github.com/brentp/vcfanno Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/vcfanno Vcs-Git: https://salsa.debian.org/med-team/vcfanno.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-golang, golang-any, golang-github-biogo-hts-dev, golang-gopkg-check.v1-dev, golang-github-burntsushi-toml-dev, golang-github-brentp-irelate-dev, golang-github-brentp-vcfgo-dev, golang-github-brentp-bix-dev, golang-github-shenwei356-xopen-dev, golang-github-pkg-errors-dev, golang-github-brentp-goluaez-dev, samtools, tabix Package-List: vcfanno deb science optional arch=any vcfanno-examples deb science optional arch=all Checksums-Sha1: a8cebae68287adba2672af57d42c68bb12aac58b 501660 vcfanno_0.3.5+ds.orig.tar.xz a87957c24c8b54ddfd7700813bdef301ad4f8286 2269072 vcfanno_0.3.5+ds-2.debian.tar.xz Checksums-Sha256: eedbe0f9a04a9422d1b4e34a2fd625a1d07d009058999883fa4df1b725f2c8ff 501660 vcfanno_0.3.5+ds.orig.tar.xz 20933a463852779869ab78a9085ef1c5a38fc28af273cbffefc6eb7f007e3e03 2269072 vcfanno_0.3.5+ds-2.debian.tar.xz Files: 5f52dc1c1e280f49a77c55ceb4672ca9 501660 vcfanno_0.3.5+ds.orig.tar.xz c0fc575588c0ff5b4c7f395b04b0dd3a 2269072 vcfanno_0.3.5+ds-2.debian.tar.xz Go-Import-Path: github.com/brentp/vcfanno -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmWBu4URHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEGEA//aBZeNn8nfzb4p+YmzsaE4ZR8DUgW20II Zt19hnMT1CVj4gnp7iRDhMwIL+KpHz7sTzi1rJMiALtWLDXh/zd8lMSomb9WI2Rs q86XqFmEFTBwN9A66mYw0v3pTnEWAm60YHd7dcm9m2vlWzxYnpzjqT8kzqns+IRg 88lSuc5XVEK29UhYTIBXNZQdJWCr6HfycDW/FC22nqNWBP6zFeP/cVVnMqXSpq4P SyuS4HCh8hjyhjMXnboKZksGgLz0dkkQszlDJ5TLrL1WwbUYYq3zHX0EYv3mlEqb aES1rb74KxyIRbYUrpyAMcY4TskGXb5Aj3ClPP753NBwMLPIN6JpiotIl+d1t9nA DE7QaEKcAnIAfCZwunBG3LSdvS90vGcB8eTI22xe63S7+TLpZWvjn+1y+ED7ER55 LTqil2lmcuOJQ/ThwaIL8zvB4iExd8sFMumLxKX9oi6rw4oYAQht5jcZ3QPATX1q OyvWYExwXGq4boFi3yiB62+XEQL0RyFbW0aeT8ShFF0fK/gxLGw4ihwdJv1yZMa+ SWz4CelFHPz8LvyH7/OOchmGPXN/k/7AYuzgdkDhs8r/cffradibnDqWm7lWssTF zTw2RGhAHq2Dlhk9rofUSvc3Mth9Ts5+B84gw/oq8ARBD4QyXi9Zd51lkUa55luN bVzuD4/GVw0= =jqNw -----END PGP SIGNATURE----- Sun Nov 24 11:32:37 UTC 2024 I: Checking whether the package is not for us Sun Nov 24 11:32:37 UTC 2024 I: Starting 1st build on remote node ionos5-amd64.debian.net. Sun Nov 24 11:32:37 UTC 2024 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Sun Nov 24 11:32:37 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sun Nov 24 11:32:37 UTC 2024 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-cCW67a' ==================================================================================== Sat Dec 27 17:55:38 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos5-amd64, called using "1 vcfanno unstable /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD 0.3.5+ds-2" as arguments. Sat Dec 27 17:55:38 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-SLShEAPg" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Dec 27 17:55:38 UTC 2025 I: Downloading source for unstable/vcfanno=0.3.5+ds-2 Reading package lists... NOTICE: 'vcfanno' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcfanno.git Please use: git clone https://salsa.debian.org/med-team/vcfanno.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2773 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (dsc) [2450 B] Get:2 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (tar) [502 kB] Get:3 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (diff) [2269 kB] Fetched 2773 kB in 0s (26.8 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'vcfanno' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcfanno.git Please use: git clone https://salsa.debian.org/med-team/vcfanno.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2773 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (dsc) [2450 B] Get:2 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (tar) [502 kB] Get:3 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (diff) [2269 kB] Fetched 2773 kB in 0s (26.8 MB/s) Download complete and in download only mode ============================================================================= Building vcfanno in unstable on amd64 on ionos5-amd64 now. Date: Sat Dec 27 17:55:38 UTC 2025 Date UTC: Sat Dec 27 17:55:38 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Sat Dec 27 05:55:38 -12 2025 I: pbuilder-time-stamp: 1766858138 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vcfanno_0.3.5+ds-2.dsc] I: copying [./vcfanno_0.3.5+ds.orig.tar.xz] I: copying [./vcfanno_0.3.5+ds-2.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Dec 19 15:49:25 2023 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./vcfanno_0.3.5+ds-2.dsc: no acceptable signature found dpkg-source: info: extracting vcfanno in vcfanno-0.3.5+ds dpkg-source: info: unpacking vcfanno_0.3.5+ds.orig.tar.xz dpkg-source: info: unpacking vcfanno_0.3.5+ds-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-archive-xopen.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1932583/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=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='d3ea32b6359d4b0f89e7dc7413fab368' 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='1932583' PS1='# ' PS2='> ' 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.ON0tKZMD/pbuilderrc_xasQ --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.ON0tKZMD/b1 --logfile b1/build.log vcfanno_0.3.5+ds-2.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1932583/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-golang, golang-any, golang-github-biogo-hts-dev, golang-gopkg-check.v1-dev, golang-github-burntsushi-toml-dev, golang-github-brentp-irelate-dev, golang-github-brentp-vcfgo-dev, golang-github-brentp-bix-dev, golang-github-shenwei356-xopen-dev, golang-github-pkg-errors-dev, golang-github-brentp-goluaez-dev, samtools, tabix dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-golang; however: Package dh-golang is not installed. pbuilder-satisfydepends-dummy depends on golang-any; however: Package golang-any is not installed. pbuilder-satisfydepends-dummy depends on golang-github-biogo-hts-dev; however: Package golang-github-biogo-hts-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-gopkg-check.v1-dev; however: Package golang-gopkg-check.v1-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-burntsushi-toml-dev; however: Package golang-github-burntsushi-toml-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-irelate-dev; however: Package golang-github-brentp-irelate-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-vcfgo-dev; however: Package golang-github-brentp-vcfgo-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-bix-dev; however: Package golang-github-brentp-bix-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-shenwei356-xopen-dev; however: Package golang-github-shenwei356-xopen-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-pkg-errors-dev; however: Package golang-github-pkg-errors-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-goluaez-dev; however: Package golang-github-brentp-goluaez-dev is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. pbuilder-satisfydepends-dummy depends on tabix; however: Package tabix is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-golang{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} golang-1.23-go{a} golang-1.23-src{a} golang-any{a} golang-github-biogo-hts-dev{a} golang-github-brentp-bix-dev{a} golang-github-brentp-goluaez-dev{a} golang-github-brentp-irelate-dev{a} golang-github-brentp-vcfgo-dev{a} golang-github-burntsushi-toml-dev{a} golang-github-cespare-xxhash-dev{a} golang-github-creack-pty-dev{a} golang-github-dsnet-compress-dev{a} golang-github-dsnet-golib-dev{a} golang-github-google-go-cmp-dev{a} golang-github-klauspost-compress-dev{a} golang-github-klauspost-pgzip-dev{a} golang-github-kr-pretty-dev{a} golang-github-kr-text-dev{a} golang-github-pkg-errors-dev{a} golang-github-rogpeppe-go-internal-dev{a} golang-github-shenwei356-xopen-dev{a} golang-github-ulikunitz-xz-dev{a} golang-github-yuin-gluare-dev{a} golang-github-yuin-goldmark-dev{a} golang-github-yuin-gopher-lua-dev{a} golang-go{a} golang-golang-x-crypto-dev{a} golang-golang-x-mod-dev{a} golang-golang-x-net-dev{a} golang-golang-x-sync-dev{a} golang-golang-x-sys-dev{a} golang-golang-x-term-dev{a} golang-golang-x-text-dev{a} golang-golang-x-tools-dev{a} golang-gopkg-check.v1-dev{a} golang-src{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpipeline1{a} libpsl5t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} po-debconf{a} samtools{a} sensible-utils{a} tabix{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx pkgconf publicsuffix wget 0 packages upgraded, 95 newly installed, 0 to remove and 0 not upgraded. Need to get 120 MB of archives. After unpacking 476 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 dh-golang all 1.62 [24.7 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 golang-1.23-src all 1.23.3-2 [19.1 MB] Get: 32 http://deb.debian.org/debian unstable/main amd64 golang-1.23-go amd64 1.23.3-2 [27.0 MB] Get: 33 http://deb.debian.org/debian unstable/main amd64 golang-src all 2:1.23~2 [5088 B] Get: 34 http://deb.debian.org/debian unstable/main amd64 golang-go amd64 2:1.23~2 [44.3 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 golang-any amd64 2:1.23~2 [5172 B] Get: 36 http://deb.debian.org/debian unstable/main amd64 golang-github-ulikunitz-xz-dev all 0.5.6-2 [352 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 golang-github-biogo-hts-dev all 1.4.5+dfsg1-1 [319 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 golang-github-pkg-errors-dev all 0.9.1-3 [12.9 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 golang-github-creack-pty-dev all 1.1.21-1 [13.0 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 golang-github-kr-text-dev all 0.2.0-2 [10.2 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-mod-dev all 0.19.0-1 [104 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-sys-dev all 0.22.0-1 [431 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-goldmark-dev all 1.7.4-1 [113 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-term-dev all 0.22.0-1 [14.8 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-text-dev all 0.16.0-1 [4003 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-crypto-dev all 1:0.25.0-1 [1682 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-net-dev all 1:0.27.0-1 [898 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-sync-dev all 0.7.0-1 [19.0 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-tools-dev all 1:0.23.0+ds-1 [1593 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 golang-github-rogpeppe-go-internal-dev all 1.12.0-3 [103 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 golang-github-kr-pretty-dev all 0.3.1-1 [11.9 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 golang-gopkg-check.v1-dev all 0.0+git20200902.038fdea-1 [32.1 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-bix-dev all 0.0~git20190718.00aa7a7+ds-2 [7608 B] Get: 54 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-gopher-lua-dev all 0.0~git20170915.0.eb1c729-5 [115 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-gluare-dev all 0.0~git20170607.d7c94f1-2 [5204 B] Get: 56 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-goluaez-dev all 0.0~git20160116.dd35d08-2 [5068 B] Get: 57 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-irelate-dev all 0.0.1+ds-1 [4136 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-vcfgo-dev all 0.0~git20190824.654ed2e-2 [40.7 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 golang-github-burntsushi-toml-dev all 1.4.0-1 [116 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 golang-github-google-go-cmp-dev all 0.6.0-1 [86.6 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 golang-github-dsnet-golib-dev all 0.0~git20171103.1ea1667-1.1 [34.1 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 golang-github-cespare-xxhash-dev all 2.3.0-1 [10.8 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 golang-github-klauspost-compress-dev all 1.17.11+ds1-1 [33.3 MB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b6 [316 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-1+b1 [365 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.6.3-1+b1 [316 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 golang-github-dsnet-compress-dev all 0.0.2~git20230904.39efe44+dfsg1-2 [189 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 golang-github-klauspost-pgzip-dev all 1.2.6-1 [115 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 golang-github-shenwei356-xopen-dev all 0.0~git20231203.5ad79ea-1 [6204 B] Get: 73 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 77 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.4.0-1+b1 [63.6 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.11.0-1 [359 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.20+ds-2 [455 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libncurses6 amd64 6.5-2+b1 [105 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 samtools amd64 1.20-3 [653 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 tabix amd64 1.20+ds-2 [486 kB] Fetched 120 MB in 4s (33.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19966 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_amd64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../23-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package dh-golang. Preparing to unpack .../29-dh-golang_1.62_all.deb ... Unpacking dh-golang (1.62) ... Selecting previously unselected package golang-1.23-src. Preparing to unpack .../30-golang-1.23-src_1.23.3-2_all.deb ... Unpacking golang-1.23-src (1.23.3-2) ... Selecting previously unselected package golang-1.23-go. Preparing to unpack .../31-golang-1.23-go_1.23.3-2_amd64.deb ... Unpacking golang-1.23-go (1.23.3-2) ... Selecting previously unselected package golang-src. Preparing to unpack .../32-golang-src_2%3a1.23~2_all.deb ... Unpacking golang-src (2:1.23~2) ... Selecting previously unselected package golang-go:amd64. Preparing to unpack .../33-golang-go_2%3a1.23~2_amd64.deb ... Unpacking golang-go:amd64 (2:1.23~2) ... Selecting previously unselected package golang-any:amd64. Preparing to unpack .../34-golang-any_2%3a1.23~2_amd64.deb ... Unpacking golang-any:amd64 (2:1.23~2) ... Selecting previously unselected package golang-github-ulikunitz-xz-dev. Preparing to unpack .../35-golang-github-ulikunitz-xz-dev_0.5.6-2_all.deb ... Unpacking golang-github-ulikunitz-xz-dev (0.5.6-2) ... Selecting previously unselected package golang-github-biogo-hts-dev. Preparing to unpack .../36-golang-github-biogo-hts-dev_1.4.5+dfsg1-1_all.deb ... Unpacking golang-github-biogo-hts-dev (1.4.5+dfsg1-1) ... Selecting previously unselected package golang-github-pkg-errors-dev. Preparing to unpack .../37-golang-github-pkg-errors-dev_0.9.1-3_all.deb ... Unpacking golang-github-pkg-errors-dev (0.9.1-3) ... Selecting previously unselected package golang-github-creack-pty-dev. Preparing to unpack .../38-golang-github-creack-pty-dev_1.1.21-1_all.deb ... Unpacking golang-github-creack-pty-dev (1.1.21-1) ... Selecting previously unselected package golang-github-kr-text-dev. Preparing to unpack .../39-golang-github-kr-text-dev_0.2.0-2_all.deb ... Unpacking golang-github-kr-text-dev (0.2.0-2) ... Selecting previously unselected package golang-golang-x-mod-dev. Preparing to unpack .../40-golang-golang-x-mod-dev_0.19.0-1_all.deb ... Unpacking golang-golang-x-mod-dev (0.19.0-1) ... Selecting previously unselected package golang-golang-x-sys-dev. Preparing to unpack .../41-golang-golang-x-sys-dev_0.22.0-1_all.deb ... Unpacking golang-golang-x-sys-dev (0.22.0-1) ... Selecting previously unselected package golang-github-yuin-goldmark-dev. Preparing to unpack .../42-golang-github-yuin-goldmark-dev_1.7.4-1_all.deb ... Unpacking golang-github-yuin-goldmark-dev (1.7.4-1) ... Selecting previously unselected package golang-golang-x-term-dev. Preparing to unpack .../43-golang-golang-x-term-dev_0.22.0-1_all.deb ... Unpacking golang-golang-x-term-dev (0.22.0-1) ... Selecting previously unselected package golang-golang-x-text-dev. Preparing to unpack .../44-golang-golang-x-text-dev_0.16.0-1_all.deb ... Unpacking golang-golang-x-text-dev (0.16.0-1) ... Selecting previously unselected package golang-golang-x-crypto-dev. Preparing to unpack .../45-golang-golang-x-crypto-dev_1%3a0.25.0-1_all.deb ... Unpacking golang-golang-x-crypto-dev (1:0.25.0-1) ... Selecting previously unselected package golang-golang-x-net-dev. Preparing to unpack .../46-golang-golang-x-net-dev_1%3a0.27.0-1_all.deb ... Unpacking golang-golang-x-net-dev (1:0.27.0-1) ... Selecting previously unselected package golang-golang-x-sync-dev. Preparing to unpack .../47-golang-golang-x-sync-dev_0.7.0-1_all.deb ... Unpacking golang-golang-x-sync-dev (0.7.0-1) ... Selecting previously unselected package golang-golang-x-tools-dev. Preparing to unpack .../48-golang-golang-x-tools-dev_1%3a0.23.0+ds-1_all.deb ... Unpacking golang-golang-x-tools-dev (1:0.23.0+ds-1) ... Selecting previously unselected package golang-github-rogpeppe-go-internal-dev. Preparing to unpack .../49-golang-github-rogpeppe-go-internal-dev_1.12.0-3_all.deb ... Unpacking golang-github-rogpeppe-go-internal-dev (1.12.0-3) ... Selecting previously unselected package golang-github-kr-pretty-dev. Preparing to unpack .../50-golang-github-kr-pretty-dev_0.3.1-1_all.deb ... Unpacking golang-github-kr-pretty-dev (0.3.1-1) ... Selecting previously unselected package golang-gopkg-check.v1-dev. Preparing to unpack .../51-golang-gopkg-check.v1-dev_0.0+git20200902.038fdea-1_all.deb ... Unpacking golang-gopkg-check.v1-dev (0.0+git20200902.038fdea-1) ... Selecting previously unselected package golang-github-brentp-bix-dev. Preparing to unpack .../52-golang-github-brentp-bix-dev_0.0~git20190718.00aa7a7+ds-2_all.deb ... Unpacking golang-github-brentp-bix-dev (0.0~git20190718.00aa7a7+ds-2) ... Selecting previously unselected package golang-github-yuin-gopher-lua-dev. Preparing to unpack .../53-golang-github-yuin-gopher-lua-dev_0.0~git20170915.0.eb1c729-5_all.deb ... Unpacking golang-github-yuin-gopher-lua-dev (0.0~git20170915.0.eb1c729-5) ... Selecting previously unselected package golang-github-yuin-gluare-dev. Preparing to unpack .../54-golang-github-yuin-gluare-dev_0.0~git20170607.d7c94f1-2_all.deb ... Unpacking golang-github-yuin-gluare-dev (0.0~git20170607.d7c94f1-2) ... Selecting previously unselected package golang-github-brentp-goluaez-dev. Preparing to unpack .../55-golang-github-brentp-goluaez-dev_0.0~git20160116.dd35d08-2_all.deb ... Unpacking golang-github-brentp-goluaez-dev (0.0~git20160116.dd35d08-2) ... Selecting previously unselected package golang-github-brentp-irelate-dev. Preparing to unpack .../56-golang-github-brentp-irelate-dev_0.0.1+ds-1_all.deb ... Unpacking golang-github-brentp-irelate-dev (0.0.1+ds-1) ... Selecting previously unselected package golang-github-brentp-vcfgo-dev. Preparing to unpack .../57-golang-github-brentp-vcfgo-dev_0.0~git20190824.654ed2e-2_all.deb ... Unpacking golang-github-brentp-vcfgo-dev (0.0~git20190824.654ed2e-2) ... Selecting previously unselected package golang-github-burntsushi-toml-dev. Preparing to unpack .../58-golang-github-burntsushi-toml-dev_1.4.0-1_all.deb ... Unpacking golang-github-burntsushi-toml-dev (1.4.0-1) ... Selecting previously unselected package golang-github-google-go-cmp-dev. Preparing to unpack .../59-golang-github-google-go-cmp-dev_0.6.0-1_all.deb ... Unpacking golang-github-google-go-cmp-dev (0.6.0-1) ... Selecting previously unselected package golang-github-dsnet-golib-dev. Preparing to unpack .../60-golang-github-dsnet-golib-dev_0.0~git20171103.1ea1667-1.1_all.deb ... Unpacking golang-github-dsnet-golib-dev (0.0~git20171103.1ea1667-1.1) ... Selecting previously unselected package golang-github-cespare-xxhash-dev. Preparing to unpack .../61-golang-github-cespare-xxhash-dev_2.3.0-1_all.deb ... Unpacking golang-github-cespare-xxhash-dev (2.3.0-1) ... Selecting previously unselected package golang-github-klauspost-compress-dev. Preparing to unpack .../62-golang-github-klauspost-compress-dev_1.17.11+ds1-1_all.deb ... Unpacking golang-github-klauspost-compress-dev (1.17.11+ds1-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../63-libbrotli1_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libbrotli-dev:amd64. Preparing to unpack .../64-libbrotli-dev_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli-dev:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libzstd-dev:amd64. Preparing to unpack .../65-libzstd-dev_1.5.6+dfsg-1+b1_amd64.deb ... Unpacking libzstd-dev:amd64 (1.5.6+dfsg-1+b1) ... Selecting previously unselected package liblzma-dev:amd64. Preparing to unpack .../66-liblzma-dev_5.6.3-1+b1_amd64.deb ... Unpacking liblzma-dev:amd64 (5.6.3-1+b1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../67-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Selecting previously unselected package libbz2-dev:amd64. Preparing to unpack .../68-libbz2-dev_1.0.8-6_amd64.deb ... Unpacking libbz2-dev:amd64 (1.0.8-6) ... Selecting previously unselected package golang-github-dsnet-compress-dev. Preparing to unpack .../69-golang-github-dsnet-compress-dev_0.0.2~git20230904.39efe44+dfsg1-2_all.deb ... Unpacking golang-github-dsnet-compress-dev (0.0.2~git20230904.39efe44+dfsg1-2) ... Selecting previously unselected package golang-github-klauspost-pgzip-dev. Preparing to unpack .../70-golang-github-klauspost-pgzip-dev_1.2.6-1_all.deb ... Unpacking golang-github-klauspost-pgzip-dev (1.2.6-1) ... Selecting previously unselected package golang-github-shenwei356-xopen-dev. Preparing to unpack .../71-golang-github-shenwei356-xopen-dev_0.0~git20231203.5ad79ea-1_all.deb ... Unpacking golang-github-shenwei356-xopen-dev (0.0~git20231203.5ad79ea-1) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../72-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../73-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../74-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../75-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../76-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../77-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../78-libsasl2-modules-db_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../79-libsasl2-2_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../80-libldap-2.5-0_2.5.18+dfsg-3+b1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../81-libnghttp2-14_1.64.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../82-libnghttp3-9_1.4.0-1+b1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.4.0-1+b1) ... Selecting previously unselected package libngtcp2-16:amd64. Preparing to unpack .../83-libngtcp2-16_1.6.0-1_amd64.deb ... Unpacking libngtcp2-16:amd64 (1.6.0-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:amd64. Preparing to unpack .../84-libngtcp2-crypto-gnutls8_1.6.0-1_amd64.deb ... Unpacking libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../85-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../86-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../87-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../88-libcurl3t64-gnutls_8.11.0-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.11.0-1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../89-libdeflate0_1.22-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.22-1) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../90-libhtscodecs2_1.6.1-1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.1-1) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../91-libhts3t64_1.20+ds-2_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-2) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../92-libncurses6_6.5-2+b1_amd64.deb ... Unpacking libncurses6:amd64 (6.5-2+b1) ... Selecting previously unselected package samtools. Preparing to unpack .../93-samtools_1.20-3_amd64.deb ... Unpacking samtools (1.20-3) ... Selecting previously unselected package tabix. Preparing to unpack .../94-tabix_1.20+ds-2_amd64.deb ... Unpacking tabix (1.20+ds-2) ... Setting up libhtscodecs2:amd64 (1.6.1-1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up golang-github-google-go-cmp-dev (0.6.0-1) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up libzstd-dev:amd64 (1.5.6+dfsg-1+b1) ... Setting up bsdextrautils (2.40.2-11) ... Setting up golang-github-creack-pty-dev (1.1.21-1) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up golang-github-pkg-errors-dev (0.9.1-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libbrotli1:amd64 (1.1.0-2+b6) ... Setting up golang-github-burntsushi-toml-dev (1.4.0-1) ... Setting up golang-golang-x-sys-dev (0.22.0-1) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up golang-github-dsnet-golib-dev (0.0~git20171103.1ea1667-1.1) ... Setting up golang-golang-x-term-dev (0.22.0-1) ... Setting up libcom-err2:amd64 (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up golang-github-cespare-xxhash-dev (2.3.0-1) ... Setting up autotools-dev (20220109.1) ... Setting up golang-github-kr-text-dev (0.2.0-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up golang-github-yuin-goldmark-dev (1.7.4-1) ... Setting up libncurses6:amd64 (6.5-2+b1) ... Setting up golang-golang-x-sync-dev (0.7.0-1) ... Setting up golang-golang-x-mod-dev (0.19.0-1) ... Setting up golang-1.23-src (1.23.3-2) ... Setting up autopoint (0.22.5-2) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up golang-github-klauspost-compress-dev (1.17.11+ds1-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:amd64 (1.4.0-1+b1) ... Setting up liblzma-dev:amd64 (5.6.3-1+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up golang-golang-x-text-dev (0.16.0-1) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up golang-github-klauspost-pgzip-dev (1.2.6-1) ... Setting up libngtcp2-16:amd64 (1.6.0-1) ... Setting up golang-golang-x-crypto-dev (1:0.25.0-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up golang-src (2:1.23~2) ... Setting up tabix (1.20+ds-2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b6) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Setting up golang-github-ulikunitz-xz-dev (0.5.6-2) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up golang-1.23-go (1.23.3-2) ... Setting up golang-github-dsnet-compress-dev (0.0.2~git20230904.39efe44+dfsg1-2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up golang-github-biogo-hts-dev (1.4.5+dfsg1-1) ... Setting up golang-golang-x-net-dev (1:0.27.0-1) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up golang-github-yuin-gopher-lua-dev (0.0~git20170915.0.eb1c729-5) ... Setting up golang-go:amd64 (2:1.23~2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3t64-gnutls:amd64 (8.11.0-1) ... Setting up golang-github-shenwei356-xopen-dev (0.0~git20231203.5ad79ea-1) ... Setting up golang-golang-x-tools-dev (1:0.23.0+ds-1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up golang-any:amd64 (2:1.23~2) ... Setting up golang-github-yuin-gluare-dev (0.0~git20170607.d7c94f1-2) ... Setting up libhts3t64:amd64 (1.20+ds-2) ... Setting up golang-github-rogpeppe-go-internal-dev (1.12.0-3) ... Setting up golang-github-kr-pretty-dev (0.3.1-1) ... Setting up debhelper (13.20) ... Setting up golang-gopkg-check.v1-dev (0.0+git20200902.038fdea-1) ... Setting up samtools (1.20-3) ... Setting up golang-github-brentp-bix-dev (0.0~git20190718.00aa7a7+ds-2) ... Setting up dh-golang (1.62) ... Setting up golang-github-brentp-goluaez-dev (0.0~git20160116.dd35d08-2) ... Setting up golang-github-brentp-vcfgo-dev (0.0~git20190824.654ed2e-2) ... Setting up golang-github-brentp-irelate-dev (0.0.1+ds-1) ... Processing triggers for libc-bin (2.40-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/vcfanno-0.3.5+ds/ && 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 > ../vcfanno_0.3.5+ds-2_source.changes dpkg-buildpackage: info: source package vcfanno dpkg-buildpackage: info: source version 0.3.5+ds-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Lance Lin dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=golang --with=golang debian/rules execute_before_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' find . -type f -name *.tbi | xargs rm -rf find . -type f -name ex.bam* | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_auto_clean -O--buildsystem=golang dh_autoreconf_clean -O--buildsystem=golang dh_clean -O--buildsystem=golang debian/rules binary dh binary --buildsystem=golang --with=golang dh_update_autotools_config -O--buildsystem=golang dh_autoreconf -O--buildsystem=golang dh_auto_configure -O--buildsystem=golang dh_auto_build -O--buildsystem=golang cd obj-x86_64-linux-gnu && go install -trimpath -v -p 42 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared encoding internal/godebugs internal/race internal/byteorder crypto/internal/alias log/internal cmp internal/asan internal/unsafeheader unicode internal/coverage/rtcov internal/goos vendor/golang.org/x/crypto/internal/alias github.com/dsnet/compress/bzip2/internal/sais unicode/utf16 unicode/utf8 internal/nettrace github.com/klauspost/compress/internal/cpuinfo vendor/golang.org/x/crypto/cryptobyte/asn1 internal/goarch container/list crypto/subtle internal/itoa github.com/dsnet/compress/internal internal/msan sync/atomic crypto/internal/boring/sig internal/cpu math/bits internal/profilerecord internal/runtime/syscall internal/runtime/atomic github.com/ulikunitz/xz/internal/hash internal/goexperiment runtime/internal/math runtime/internal/sys internal/abi internal/chacha8rand internal/bytealg math internal/runtime/exithook internal/stringslite runtime github.com/klauspost/compress iter internal/weak internal/reflectlite sync maps slices internal/singleflight internal/bisect internal/testlog runtime/cgo internal/godebug errors io sort strconv internal/oserror path crypto/internal/edwards25519/field vendor/golang.org/x/net/dns/dnsmessage math/rand math/rand/v2 crypto/internal/nistec/fiat syscall crypto/internal/randutil hash bytes strings hash/crc32 hash/crc64 internal/concurrent crypto/internal/edwards25519 container/heap unique crypto crypto/rc4 reflect vendor/golang.org/x/text/transform crypto/cipher crypto/md5 net/netip github.com/brentp/irelate/interfaces bufio github.com/dsnet/compress/internal/errors regexp/syntax net/http/internal/ascii crypto/internal/boring crypto/des crypto/hmac crypto/sha512 crypto/sha1 crypto/sha256 crypto/aes github.com/dsnet/compress vendor/golang.org/x/crypto/hkdf regexp internal/syscall/execenv internal/syscall/unix time github.com/BurntSushi/toml/internal context io/fs internal/poll internal/fmtsort encoding/binary embed internal/filepathlite crypto/internal/nistec os encoding/base64 github.com/cespare/xxhash vendor/golang.org/x/crypto/chacha20 vendor/golang.org/x/crypto/internal/poly1305 github.com/klauspost/compress/internal/snapref encoding/pem crypto/ecdh io/ioutil fmt path/filepath vendor/golang.org/x/sys/cpu os/exec vendor/golang.org/x/crypto/sha3 vendor/golang.org/x/crypto/chacha20poly1305 flag encoding/csv encoding/hex log net/url github.com/yuin/gopher-lua/pm compress/flate github.com/pkg/errors github.com/ulikunitz/xz/internal/xlog runtime/debug mime/quotedprintable github.com/yuin/gopher-lua/ast github.com/dsnet/compress/internal/prefix vendor/golang.org/x/net/http2/hpack mime net/http/internal github.com/klauspost/compress/fse encoding/json math/big vendor/golang.org/x/text/unicode/norm github.com/ulikunitz/xz/lzma github.com/yuin/gopher-lua/parse github.com/brentp/vcfgo vendor/golang.org/x/text/unicode/bidi github.com/klauspost/compress/huff0 compress/gzip github.com/klauspost/compress/flate github.com/dsnet/compress/bzip2 github.com/yuin/gopher-lua github.com/biogo/hts/bgzf github.com/ulikunitz/xz vendor/golang.org/x/text/secure/bidirule github.com/biogo/hts/bgzf/index vendor/golang.org/x/net/idna github.com/BurntSushi/toml github.com/biogo/hts/csi github.com/biogo/hts/internal github.com/biogo/hts/tabix github.com/biogo/hts/sam crypto/rand crypto/internal/boring/bbig crypto/elliptic crypto/internal/bigmod crypto/dsa encoding/asn1 crypto/ed25519 crypto/internal/hpke crypto/internal/mlkem768 github.com/klauspost/compress/zstd crypto/rsa github.com/klauspost/pgzip crypto/x509/pkix vendor/golang.org/x/crypto/cryptobyte github.com/biogo/hts/bam github.com/brentp/irelate/parsers crypto/ecdsa github.com/brentp/bix github.com/yuin/gluare github.com/brentp/irelate github.com/brentp/goluaez os/user net github.com/brentp/vcfanno/api vendor/golang.org/x/net/http/httpproxy net/textproto crypto/x509 vendor/golang.org/x/net/http/httpguts mime/multipart crypto/tls net/http/httptrace net/http github.com/shenwei356/xopen github.com/brentp/vcfanno/shared github.com/brentp/vcfanno dh_auto_test -O--buildsystem=golang cd obj-x86_64-linux-gnu && go test -vet=off -v -p 42 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared ? github.com/brentp/vcfanno/shared [no test files] testing: warning: no tests to run PASS ok github.com/brentp/vcfanno 0.005s [no tests to run] === RUN Test OK: 13 passed --- PASS: Test (0.01s) === RUN TestHandleA --- PASS: TestHandleA (0.00s) === RUN TestHandlAMulti --- PASS: TestHandlAMulti (0.00s) === RUN TestByAlt --- PASS: TestByAlt (0.00s) PASS ok github.com/brentp/vcfanno/api 0.015s create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=golang dh_prep -O--buildsystem=golang debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_auto_install -- --no-source cd obj-x86_64-linux-gnu && mkdir -p /build/reproducible-path/vcfanno-0.3.5\+ds/debian/tmp/usr cd obj-x86_64-linux-gnu && cp -r bin /build/reproducible-path/vcfanno-0.3.5\+ds/debian/tmp/usr make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_install -O--buildsystem=golang debian/rules override_dh_installdocs make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' # Regenerate bam and bam index file cat debian/missing-sources/ex.sam| samtools view -Sb - > example/ex.bam samtools index example/ex.bam example/ex.bam.bai # Remove corrupt gz file rm -rf tests/notbgz/notbgz.vcf.gz # Regenerate all .tbi files tabix example/exac.vcf.gz tabix example/fitcons.bed.gz tabix tests/astar/astar.anno.vcf.gz tabix tests/by_alt_float/annotation.tsv.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "2 41647 A G 0.591814 8.493" tabix tests/citest/at/testexon.bed.gz tabix tests/citest/dummyexons.bed.gz tabix tests/data/multiple-alts.vcf.gz tabix tests/data/number.vcf.gz tabix tests/dbnsfp/dbNSFP_example.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G A A V . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.01 0.56404 D Q96SF2 TCPQM_HUMAN 380 0.789 0.42612 P 0.542 0.47084 P 0.904520 0.08589 U 0.938783 0.885143 0.27956 N simple_aae A380V TCPQL_HUMAN A380V 2.93 0.84781 M 2.34 0.16357 T -3.1 0.63513 D NM_014406.4 A380V 0.141 0.16484 -1.0168 0.24741 T 0.0721 0.29265 T 10 5.216332 0.70443 25.6 0.99874441920417656 0.95120 0.57787 0.30213 DAEFGBI 0.140898394235071 3.051114 0.48442 0.0299346018802206 0.41293 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G C A G . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.033 0.44307 D Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 U 0.938783 0.903476 0.27629 N simple_aae A380G TCPQL_HUMAN A380G 2.93 0.84781 M 2.51 0.14293 T -2.32 0.51437 N NM_014406.4 A380G 0.103 0.10746 -0.8882 0.49115 T 0.0370 0.15942 T 10 3.370940 0.46354 22.9 0.99354601284678379 0.60415 0.63209 0.31754 DAEFGBI -0.422298261850935 1.3349 0.24762 -0.399121413419092 0.24558 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G T A D . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.004 0.65363 D Q96SF2 TCPQM_HUMAN 380 0.992 0.62897 D 0.889 0.61317 P 0.904520 0.08589 U 0.938783 0.641363 0.30591 N simple_aae A380D TCPQL_HUMAN A380D 2.93 0.84781 M 2.38 0.15849 T -3.02 0.62590 D NM_014406.4 A380D 0.399 0.45798 -0.9564 0.39865 T 0.0994 0.37051 T 10 5.077183 0.68398 25.3 0.99680235566444375 0.79002 0.61538 0.31252 DAEFGBI 0.302961726972868 3.794568 0.56349 0.143990621275748 0.47151 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C A A S . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 1.0 0.00963 T Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 N 0.938783 0.988396 0.24389 N simple_aae A380S TCPQL_HUMAN A380S 0.93 0.23636 L 2.52 0.14169 T -0.05 0.07751 N NM_014406.4 A380S 0.072 0.06067 -0.9413 0.42435 T 0.0190 0.07938 T 10 0.328585 0.12563 5.967 0.75658077739943641 0.10790 0.01742 0.05435 NAEFGBI -0.952241553466705 0.4572448 0.09664 -0.959672568167129 0.10513 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C G A P . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.168 0.22973 T Q96SF2 TCPQM_HUMAN 380 0.231 0.28914 B 0.179 0.34149 B 0.904520 0.08589 N 0.938783 0.910584 0.27489 N simple_aae A380P TCPQL_HUMAN A380P 1.83 0.48223 L 2.43 0.15268 T -2.6 0.55938 D NM_014406.4 A380P 0.246 0.30065 -0.9532 0.40439 T 0.0355 0.15290 T 10 1.588787 0.25254 13.79 0.97019856529327109 0.31467 0.02096 0.06147 NAEFGBI -0.653690275480882 0.8922109 0.17411 -0.724371843784986 0.16073 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C T A T . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.011 0.55478 D Q96SF2 TCPQM_HUMAN 380 0.62 0.38009 P 0.42 0.43281 B 0.904520 0.08589 U 0.938783 0.974599 0.25456 N simple_aae A380T TCPQL_HUMAN A380T 2.93 0.84781 M 2.38 0.15849 T -1.63 0.39092 N NM_014406.4 A380T 0.116 0.12740 -0.9890 0.32851 T 0.0565 0.23792 T 10 4.977856 0.66957 25.1 0.99619336564501015 0.75088 0.02107 0.06169 NAEFGBI -0.366914589131182 1.4564 0.26729 -0.531429606692027 0.20917 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C A G V . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.997 0.85043 D 0.001429 0.39031 U 0.000000 0.999999 0.58814 D simple_aae G379V TCPQL_HUMAN G379V 3.235 0.89818 M 0.17 0.60507 T -8.34 0.97032 D NM_014406.4 G379V 0.823 0.81093 -0.3590 0.73312 T 0.3588 0.72112 T 10 5.317930 0.71958 25.8 0.99597950363474697 0.73827 0.12361 0.17034 NAEFGBI 0.180546234526767 3.218253 0.50322 -0.032189250061603 0.38380 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C G G A . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.027 0.46462 D Q96SF2 TCPQM_HUMAN 379 0.967 0.54448 D 0.893 0.61563 P 0.001429 0.39031 U 0.000000 0.96704 0.38563 D simple_aae G379A TCPQL_HUMAN G379A 2.085 0.57921 M 0.23 0.59737 T -5.51 0.85890 D NM_014406.4 G379A 0.638 0.65489 -0.5215 0.67883 T 0.2845 0.65659 T 10 1.587093 0.25234 13.78 0.95704074870341493 0.27016 0.10995 0.16155 N AEFGBI 0.0767559827490708 2.795521 0.45442 -0.102097947215648 0.35323 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C T G E . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.998 0.87503 D 0.001429 0.39031 U 0.000000 0.987014 0.40521 D simple_aae G379E TCPQL_HUMAN G379E 3.235 0.89818 M 0.19 0.60258 T -7.3 0.94470 D NM_014406.4 G379E 0.87 0.85752 -0.3469 0.73662 T 0.3588 0.72112 T 10 4.934483 0.66331 25.0 0.99672190146911999 0.78475 0.09552 0.15110 NAEFGBI 0.180844068315063 3.219533 0.50337 -0.0319789254027045 0.38387 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C A G X . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 . . . . . . . . . . . . 0.001429 0.39031 U 0.000000 1 0.81033 D complex_aae G379* TCPQL_HUMAN G379* . . . . . . . . . . . . . . . . . . . . 10.820180 0.97019 36 0.99023181097119439 0.50228 0.42257 0.26601 N AEFGBI 0.602300241062557 5.946894 0.73340 0.306416110176004 0.56174 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C G G R . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.462289 0.74129 26.1 0.99854462032636349 0.93313 0.43619 0.26900 NAEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C T G R rs764133439 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.691531 0.77646 26.8 0.9985436076811024 0.93313 0.36787 0.25383 N AEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . 2 1.647e-05 2 1.647e-05 0 0 2 1.727e-04 0 0 0 0 0 0 0 0 21.883e-05 2 1.883e-05 0 0 2 1.783e-04 0 0 0 0 0 0 0 0 2 2.204e-05 2 2.204e-05 0 0 2 1.729e-04 0 0 0 0 0 0 0 0 . . . . TCP-1-like chaperonin intermediate domain . ." tabix tests/dbnsfp/dbNSFP_ex.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G A A V . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.01 0.56404 D Q96SF2 TCPQM_HUMAN 380 0.789 0.42612 P 0.542 0.47084 P 0.904520 0.08589 U 0.938783 0.885143 0.27956 N simple_aae A380V TCPQL_HUMAN A380V 2.93 0.84781 M 2.34 0.16357 T -3.1 0.63513 D NM_014406.4 A380V 0.141 0.16484 -1.0168 0.24741 T 0.0721 0.29265 T 10 5.216332 0.70443 25.6 0.99874441920417656 0.95120 0.57787 0.30213 DAEFGBI 0.140898394235071 3.051114 0.48442 0.0299346018802206 0.41293 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G C A G . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.033 0.44307 D Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 U 0.938783 0.903476 0.27629 N simple_aae A380G TCPQL_HUMAN A380G 2.93 0.84781 M 2.51 0.14293 T -2.32 0.51437 N NM_014406.4 A380G 0.103 0.10746 -0.8882 0.49115 T 0.0370 0.15942 T 10 3.370940 0.46354 22.9 0.99354601284678379 0.60415 0.63209 0.31754 DAEFGBI -0.422298261850935 1.3349 0.24762 -0.399121413419092 0.24558 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G T A D . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.004 0.65363 D Q96SF2 TCPQM_HUMAN 380 0.992 0.62897 D 0.889 0.61317 P 0.904520 0.08589 U 0.938783 0.641363 0.30591 N simple_aae A380D TCPQL_HUMAN A380D 2.93 0.84781 M 2.38 0.15849 T -3.02 0.62590 D NM_014406.4 A380D 0.399 0.45798 -0.9564 0.39865 T 0.0994 0.37051 T 10 5.077183 0.68398 25.3 0.99680235566444375 0.79002 0.61538 0.31252 DAEFGBI 0.302961726972868 3.794568 0.56349 0.143990621275748 0.47151 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C A A S . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 1.0 0.00963 T Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 N 0.938783 0.988396 0.24389 N simple_aae A380S TCPQL_HUMAN A380S 0.93 0.23636 L 2.52 0.14169 T -0.05 0.07751 N NM_014406.4 A380S 0.072 0.06067 -0.9413 0.42435 T 0.0190 0.07938 T 10 0.328585 0.12563 5.967 0.75658077739943641 0.10790 0.01742 0.05435 NAEFGBI -0.952241553466705 0.4572448 0.09664 -0.959672568167129 0.10513 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C G A P . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.168 0.22973 T Q96SF2 TCPQM_HUMAN 380 0.231 0.28914 B 0.179 0.34149 B 0.904520 0.08589 N 0.938783 0.910584 0.27489 N simple_aae A380P TCPQL_HUMAN A380P 1.83 0.48223 L 2.43 0.15268 T -2.6 0.55938 D NM_014406.4 A380P 0.246 0.30065 -0.9532 0.40439 T 0.0355 0.15290 T 10 1.588787 0.25254 13.79 0.97019856529327109 0.31467 0.02096 0.06147 NAEFGBI -0.653690275480882 0.8922109 0.17411 -0.724371843784986 0.16073 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C T A T . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.011 0.55478 D Q96SF2 TCPQM_HUMAN 380 0.62 0.38009 P 0.42 0.43281 B 0.904520 0.08589 U 0.938783 0.974599 0.25456 N simple_aae A380T TCPQL_HUMAN A380T 2.93 0.84781 M 2.38 0.15849 T -1.63 0.39092 N NM_014406.4 A380T 0.116 0.12740 -0.9890 0.32851 T 0.0565 0.23792 T 10 4.977856 0.66957 25.1 0.99619336564501015 0.75088 0.02107 0.06169 NAEFGBI -0.366914589131182 1.4564 0.26729 -0.531429606692027 0.20917 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C A G V . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.997 0.85043 D 0.001429 0.39031 U 0.000000 0.999999 0.58814 D simple_aae G379V TCPQL_HUMAN G379V 3.235 0.89818 M 0.17 0.60507 T -8.34 0.97032 D NM_014406.4 G379V 0.823 0.81093 -0.3590 0.73312 T 0.3588 0.72112 T 10 5.317930 0.71958 25.8 0.99597950363474697 0.73827 0.12361 0.17034 NAEFGBI 0.180546234526767 3.218253 0.50322 -0.032189250061603 0.38380 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C G G A . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.027 0.46462 D Q96SF2 TCPQM_HUMAN 379 0.967 0.54448 D 0.893 0.61563 P 0.001429 0.39031 U 0.000000 0.96704 0.38563 D simple_aae G379A TCPQL_HUMAN G379A 2.085 0.57921 M 0.23 0.59737 T -5.51 0.85890 D NM_014406.4 G379A 0.638 0.65489 -0.5215 0.67883 T 0.2845 0.65659 T 10 1.587093 0.25234 13.78 0.95704074870341493 0.27016 0.10995 0.16155 N AEFGBI 0.0767559827490708 2.795521 0.45442 -0.102097947215648 0.35323 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C T G E . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.998 0.87503 D 0.001429 0.39031 U 0.000000 0.987014 0.40521 D simple_aae G379E TCPQL_HUMAN G379E 3.235 0.89818 M 0.19 0.60258 T -7.3 0.94470 D NM_014406.4 G379E 0.87 0.85752 -0.3469 0.73662 T 0.3588 0.72112 T 10 4.934483 0.66331 25.0 0.99672190146911999 0.78475 0.09552 0.15110 NAEFGBI 0.180844068315063 3.219533 0.50337 -0.0319789254027045 0.38387 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C A G X . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 . . . . . . . . . . . . 0.001429 0.39031 U 0.000000 1 0.81033 D complex_aae G379* TCPQL_HUMAN G379* . . . . . . . . . . . . . . . . . . . . 10.820180 0.97019 36 0.99023181097119439 0.50228 0.42257 0.26601 N AEFGBI 0.602300241062557 5.946894 0.73340 0.306416110176004 0.56174 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C G G R . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.462289 0.74129 26.1 0.99854462032636349 0.93313 0.43619 0.26900 NAEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C T G R rs764133439 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.691531 0.77646 26.8 0.9985436076811024 0.93313 0.36787 0.25383 N AEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . 2 1.647e-05 2 1.647e-05 0 0 2 1.727e-04 0 0 0 0 0 0 0 0 21.883e-05 2 1.883e-05 0 0 2 1.783e-04 0 0 0 0 0 0 0 0 2 2.204e-05 2 2.204e-05 0 0 2 1.729e-04 0 0 0 0 0 0 0 0 . . . . TCP-1-like chaperonin intermediate domain . ." tabix tests/id-test/cosmic.small.vcf.gz tabix tests/id-test/dbsnp.small.vcf.gz tabix tests/id-test/small.vcf.gz tabix tests/multiple-alts/ma-db.vcf.gz tabix tests/notbgz/gno.vcf.gz tabix tests/overwrite-multiple-alts/a/whole.vcf.gz tabix tests/overwrite-multiple-alts/b/cadd_indels.vcf.gz tabix tests/overwrite-multiple-alts/b/whole_genome_snv_slice.vcf.gz tabix tests/ref-alt-test/tmp_annotation.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "1 14397 rs756427959 CTGT C 530 71 0.1340 194 71 0 460 59 0.1283 171 59 0 304 36 0.1184 116 36 0 94 11 0.1170 36 11 0" [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "1 14397 rs756427959 CTGT CT 530 0 0.0000 265 0 0 460 0 0.0000 230 0 0 304 0 0.0000 152 0 0 94 0 0.0000 47 0 0" tabix tests/ref-alt-test/tmp_calls.vcf.gz tabix tests/testVA/test-gnomad.vcf.gz tabix docs/examples/gff_sv/genes.gff3.gz dh_installdocs make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_installchangelogs -O--buildsystem=golang dh_installman -O--buildsystem=golang dh_installsystemduser -O--buildsystem=golang dh_perl -O--buildsystem=golang dh_link -O--buildsystem=golang dh_strip_nondeterminism -O--buildsystem=golang dh_compress -O--buildsystem=golang dh_fixperms -O--buildsystem=golang dh_missing -O--buildsystem=golang dh_strip -a -O--buildsystem=golang dh_makeshlibs -a -O--buildsystem=golang dh_shlibdeps -a -O--buildsystem=golang dh_installdeb -O--buildsystem=golang dh_golang -O--buildsystem=golang dh_gencontrol -O--buildsystem=golang dpkg-gencontrol: warning: Depends field of package vcfanno-examples: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package vcfanno: substitution variable ${misc:Static-Built-Using} unused, but is defined dpkg-gencontrol: warning: package vcfanno: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -O--buildsystem=golang dh_builddeb -O--buildsystem=golang dpkg-deb: building package 'vcfanno' in '../vcfanno_0.3.5+ds-2_amd64.deb'. dpkg-deb: building package 'vcfanno-dbgsym' in '../vcfanno-dbgsym_0.3.5+ds-2_amd64.deb'. dpkg-deb: building package 'vcfanno-examples' in '../vcfanno-examples_0.3.5+ds-2_all.deb'. dpkg-genbuildinfo --build=binary -O../vcfanno_0.3.5+ds-2_amd64.buildinfo dpkg-genchanges --build=binary -O../vcfanno_0.3.5+ds-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/1932583 and its subdirectories I: Current time: Sat Dec 27 05:57:32 -12 2025 I: pbuilder-time-stamp: 1766858252 Sat Dec 27 17:57:32 UTC 2025 I: Signing ./b1/vcfanno_0.3.5+ds-2_amd64.buildinfo as vcfanno_0.3.5+ds-2_amd64.buildinfo.asc Sat Dec 27 17:57:32 UTC 2025 I: Signed ./b1/vcfanno_0.3.5+ds-2_amd64.buildinfo as ./b1/vcfanno_0.3.5+ds-2_amd64.buildinfo.asc Sat Dec 27 17:57:32 UTC 2025 - build #1 for vcfanno/unstable/amd64 on ionos5-amd64 done. Starting cleanup. All cleanup done. Sat Dec 27 17:57:32 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-SLShEAPg, removing. /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 11:34 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 11:32 b2 -rw------- 1 jenkins jenkins 3567 Nov 24 11:32 rbuildlog.0PndFlI -rw-r--r-- 1 jenkins jenkins 2450 Dec 19 2023 vcfanno_0.3.5+ds-2.dsc /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/b1: total 13132 -rw-r--r-- 1 jenkins jenkins 77815 Nov 24 11:34 build.log -rw-r--r-- 1 jenkins jenkins 2758356 Nov 24 11:34 vcfanno-dbgsym_0.3.5+ds-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 5713764 Nov 24 11:34 vcfanno-examples_0.3.5+ds-2_all.deb -rw-r--r-- 1 jenkins jenkins 2269072 Nov 24 11:34 vcfanno_0.3.5+ds-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2450 Nov 24 11:34 vcfanno_0.3.5+ds-2.dsc -rw-r--r-- 1 jenkins jenkins 8094 Nov 24 11:34 vcfanno_0.3.5+ds-2_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 8976 Nov 24 11:34 vcfanno_0.3.5+ds-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1857 Nov 24 11:34 vcfanno_0.3.5+ds-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 2589020 Nov 24 11:34 vcfanno_0.3.5+ds-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1318 Nov 24 11:34 vcfanno_0.3.5+ds-2_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/b2: total 0 Sun Nov 24 11:34:33 UTC 2024 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Dec 27 05:55:38 -12 2025 I: pbuilder-time-stamp: 1766858138 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vcfanno_0.3.5+ds-2.dsc] I: copying [./vcfanno_0.3.5+ds.orig.tar.xz] I: copying [./vcfanno_0.3.5+ds-2.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Dec 19 15:49:25 2023 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./vcfanno_0.3.5+ds-2.dsc: no acceptable signature found dpkg-source: info: extracting vcfanno in vcfanno-0.3.5+ds dpkg-source: info: unpacking vcfanno_0.3.5+ds.orig.tar.xz dpkg-source: info: unpacking vcfanno_0.3.5+ds-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-archive-xopen.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1932583/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=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='d3ea32b6359d4b0f89e7dc7413fab368' 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='1932583' PS1='# ' PS2='> ' 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.ON0tKZMD/pbuilderrc_xasQ --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.ON0tKZMD/b1 --logfile b1/build.log vcfanno_0.3.5+ds-2.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1932583/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-golang, golang-any, golang-github-biogo-hts-dev, golang-gopkg-check.v1-dev, golang-github-burntsushi-toml-dev, golang-github-brentp-irelate-dev, golang-github-brentp-vcfgo-dev, golang-github-brentp-bix-dev, golang-github-shenwei356-xopen-dev, golang-github-pkg-errors-dev, golang-github-brentp-goluaez-dev, samtools, tabix dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-golang; however: Package dh-golang is not installed. pbuilder-satisfydepends-dummy depends on golang-any; however: Package golang-any is not installed. pbuilder-satisfydepends-dummy depends on golang-github-biogo-hts-dev; however: Package golang-github-biogo-hts-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-gopkg-check.v1-dev; however: Package golang-gopkg-check.v1-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-burntsushi-toml-dev; however: Package golang-github-burntsushi-toml-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-irelate-dev; however: Package golang-github-brentp-irelate-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-vcfgo-dev; however: Package golang-github-brentp-vcfgo-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-bix-dev; however: Package golang-github-brentp-bix-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-shenwei356-xopen-dev; however: Package golang-github-shenwei356-xopen-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-pkg-errors-dev; however: Package golang-github-pkg-errors-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-goluaez-dev; however: Package golang-github-brentp-goluaez-dev is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. pbuilder-satisfydepends-dummy depends on tabix; however: Package tabix is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-golang{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} golang-1.23-go{a} golang-1.23-src{a} golang-any{a} golang-github-biogo-hts-dev{a} golang-github-brentp-bix-dev{a} golang-github-brentp-goluaez-dev{a} golang-github-brentp-irelate-dev{a} golang-github-brentp-vcfgo-dev{a} golang-github-burntsushi-toml-dev{a} golang-github-cespare-xxhash-dev{a} golang-github-creack-pty-dev{a} golang-github-dsnet-compress-dev{a} golang-github-dsnet-golib-dev{a} golang-github-google-go-cmp-dev{a} golang-github-klauspost-compress-dev{a} golang-github-klauspost-pgzip-dev{a} golang-github-kr-pretty-dev{a} golang-github-kr-text-dev{a} golang-github-pkg-errors-dev{a} golang-github-rogpeppe-go-internal-dev{a} golang-github-shenwei356-xopen-dev{a} golang-github-ulikunitz-xz-dev{a} golang-github-yuin-gluare-dev{a} golang-github-yuin-goldmark-dev{a} golang-github-yuin-gopher-lua-dev{a} golang-go{a} golang-golang-x-crypto-dev{a} golang-golang-x-mod-dev{a} golang-golang-x-net-dev{a} golang-golang-x-sync-dev{a} golang-golang-x-sys-dev{a} golang-golang-x-term-dev{a} golang-golang-x-text-dev{a} golang-golang-x-tools-dev{a} golang-gopkg-check.v1-dev{a} golang-src{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpipeline1{a} libpsl5t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} po-debconf{a} samtools{a} sensible-utils{a} tabix{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx pkgconf publicsuffix wget 0 packages upgraded, 95 newly installed, 0 to remove and 0 not upgraded. Need to get 120 MB of archives. After unpacking 476 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 dh-golang all 1.62 [24.7 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 golang-1.23-src all 1.23.3-2 [19.1 MB] Get: 32 http://deb.debian.org/debian unstable/main amd64 golang-1.23-go amd64 1.23.3-2 [27.0 MB] Get: 33 http://deb.debian.org/debian unstable/main amd64 golang-src all 2:1.23~2 [5088 B] Get: 34 http://deb.debian.org/debian unstable/main amd64 golang-go amd64 2:1.23~2 [44.3 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 golang-any amd64 2:1.23~2 [5172 B] Get: 36 http://deb.debian.org/debian unstable/main amd64 golang-github-ulikunitz-xz-dev all 0.5.6-2 [352 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 golang-github-biogo-hts-dev all 1.4.5+dfsg1-1 [319 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 golang-github-pkg-errors-dev all 0.9.1-3 [12.9 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 golang-github-creack-pty-dev all 1.1.21-1 [13.0 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 golang-github-kr-text-dev all 0.2.0-2 [10.2 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-mod-dev all 0.19.0-1 [104 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-sys-dev all 0.22.0-1 [431 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-goldmark-dev all 1.7.4-1 [113 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-term-dev all 0.22.0-1 [14.8 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-text-dev all 0.16.0-1 [4003 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-crypto-dev all 1:0.25.0-1 [1682 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-net-dev all 1:0.27.0-1 [898 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-sync-dev all 0.7.0-1 [19.0 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-tools-dev all 1:0.23.0+ds-1 [1593 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 golang-github-rogpeppe-go-internal-dev all 1.12.0-3 [103 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 golang-github-kr-pretty-dev all 0.3.1-1 [11.9 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 golang-gopkg-check.v1-dev all 0.0+git20200902.038fdea-1 [32.1 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-bix-dev all 0.0~git20190718.00aa7a7+ds-2 [7608 B] Get: 54 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-gopher-lua-dev all 0.0~git20170915.0.eb1c729-5 [115 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-gluare-dev all 0.0~git20170607.d7c94f1-2 [5204 B] Get: 56 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-goluaez-dev all 0.0~git20160116.dd35d08-2 [5068 B] Get: 57 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-irelate-dev all 0.0.1+ds-1 [4136 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-vcfgo-dev all 0.0~git20190824.654ed2e-2 [40.7 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 golang-github-burntsushi-toml-dev all 1.4.0-1 [116 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 golang-github-google-go-cmp-dev all 0.6.0-1 [86.6 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 golang-github-dsnet-golib-dev all 0.0~git20171103.1ea1667-1.1 [34.1 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 golang-github-cespare-xxhash-dev all 2.3.0-1 [10.8 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 golang-github-klauspost-compress-dev all 1.17.11+ds1-1 [33.3 MB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b6 [316 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-1+b1 [365 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.6.3-1+b1 [316 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 golang-github-dsnet-compress-dev all 0.0.2~git20230904.39efe44+dfsg1-2 [189 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 golang-github-klauspost-pgzip-dev all 1.2.6-1 [115 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 golang-github-shenwei356-xopen-dev all 0.0~git20231203.5ad79ea-1 [6204 B] Get: 73 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 77 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.4.0-1+b1 [63.6 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.11.0-1 [359 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.20+ds-2 [455 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libncurses6 amd64 6.5-2+b1 [105 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 samtools amd64 1.20-3 [653 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 tabix amd64 1.20+ds-2 [486 kB] Fetched 120 MB in 4s (33.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19966 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_amd64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:amd64. 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Setting up golang-github-burntsushi-toml-dev (1.4.0-1) ... Setting up golang-golang-x-sys-dev (0.22.0-1) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up golang-github-dsnet-golib-dev (0.0~git20171103.1ea1667-1.1) ... Setting up golang-golang-x-term-dev (0.22.0-1) ... Setting up libcom-err2:amd64 (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up golang-github-cespare-xxhash-dev (2.3.0-1) ... Setting up autotools-dev (20220109.1) ... Setting up golang-github-kr-text-dev (0.2.0-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up golang-github-yuin-goldmark-dev (1.7.4-1) ... Setting up libncurses6:amd64 (6.5-2+b1) ... Setting up golang-golang-x-sync-dev (0.7.0-1) ... Setting up golang-golang-x-mod-dev (0.19.0-1) ... Setting up golang-1.23-src (1.23.3-2) ... Setting up autopoint (0.22.5-2) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up golang-github-klauspost-compress-dev (1.17.11+ds1-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:amd64 (1.4.0-1+b1) ... Setting up liblzma-dev:amd64 (5.6.3-1+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up golang-golang-x-text-dev (0.16.0-1) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up golang-github-klauspost-pgzip-dev (1.2.6-1) ... Setting up libngtcp2-16:amd64 (1.6.0-1) ... Setting up golang-golang-x-crypto-dev (1:0.25.0-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up golang-src (2:1.23~2) ... Setting up tabix (1.20+ds-2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b6) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Setting up golang-github-ulikunitz-xz-dev (0.5.6-2) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up golang-1.23-go (1.23.3-2) ... Setting up golang-github-dsnet-compress-dev (0.0.2~git20230904.39efe44+dfsg1-2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up golang-github-biogo-hts-dev (1.4.5+dfsg1-1) ... Setting up golang-golang-x-net-dev (1:0.27.0-1) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up golang-github-yuin-gopher-lua-dev (0.0~git20170915.0.eb1c729-5) ... Setting up golang-go:amd64 (2:1.23~2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3t64-gnutls:amd64 (8.11.0-1) ... Setting up golang-github-shenwei356-xopen-dev (0.0~git20231203.5ad79ea-1) ... Setting up golang-golang-x-tools-dev (1:0.23.0+ds-1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up golang-any:amd64 (2:1.23~2) ... Setting up golang-github-yuin-gluare-dev (0.0~git20170607.d7c94f1-2) ... Setting up libhts3t64:amd64 (1.20+ds-2) ... Setting up golang-github-rogpeppe-go-internal-dev (1.12.0-3) ... Setting up golang-github-kr-pretty-dev (0.3.1-1) ... Setting up debhelper (13.20) ... Setting up golang-gopkg-check.v1-dev (0.0+git20200902.038fdea-1) ... Setting up samtools (1.20-3) ... Setting up golang-github-brentp-bix-dev (0.0~git20190718.00aa7a7+ds-2) ... Setting up dh-golang (1.62) ... Setting up golang-github-brentp-goluaez-dev (0.0~git20160116.dd35d08-2) ... Setting up golang-github-brentp-vcfgo-dev (0.0~git20190824.654ed2e-2) ... Setting up golang-github-brentp-irelate-dev (0.0.1+ds-1) ... Processing triggers for libc-bin (2.40-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/vcfanno-0.3.5+ds/ && 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 > ../vcfanno_0.3.5+ds-2_source.changes dpkg-buildpackage: info: source package vcfanno dpkg-buildpackage: info: source version 0.3.5+ds-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Lance Lin dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=golang --with=golang debian/rules execute_before_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' find . -type f -name *.tbi | xargs rm -rf find . -type f -name ex.bam* | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_auto_clean -O--buildsystem=golang dh_autoreconf_clean -O--buildsystem=golang dh_clean -O--buildsystem=golang debian/rules binary dh binary --buildsystem=golang --with=golang dh_update_autotools_config -O--buildsystem=golang dh_autoreconf -O--buildsystem=golang dh_auto_configure -O--buildsystem=golang dh_auto_build -O--buildsystem=golang cd obj-x86_64-linux-gnu && go install -trimpath -v -p 42 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared encoding internal/godebugs internal/race internal/byteorder crypto/internal/alias log/internal cmp internal/asan internal/unsafeheader unicode internal/coverage/rtcov internal/goos vendor/golang.org/x/crypto/internal/alias github.com/dsnet/compress/bzip2/internal/sais unicode/utf16 unicode/utf8 internal/nettrace github.com/klauspost/compress/internal/cpuinfo vendor/golang.org/x/crypto/cryptobyte/asn1 internal/goarch container/list crypto/subtle internal/itoa github.com/dsnet/compress/internal internal/msan sync/atomic crypto/internal/boring/sig internal/cpu math/bits internal/profilerecord internal/runtime/syscall internal/runtime/atomic github.com/ulikunitz/xz/internal/hash internal/goexperiment runtime/internal/math runtime/internal/sys internal/abi internal/chacha8rand internal/bytealg math internal/runtime/exithook internal/stringslite runtime github.com/klauspost/compress iter internal/weak internal/reflectlite sync maps slices internal/singleflight internal/bisect internal/testlog runtime/cgo internal/godebug errors io sort strconv internal/oserror path crypto/internal/edwards25519/field vendor/golang.org/x/net/dns/dnsmessage math/rand math/rand/v2 crypto/internal/nistec/fiat syscall crypto/internal/randutil hash bytes strings hash/crc32 hash/crc64 internal/concurrent crypto/internal/edwards25519 container/heap unique crypto crypto/rc4 reflect vendor/golang.org/x/text/transform crypto/cipher crypto/md5 net/netip github.com/brentp/irelate/interfaces bufio github.com/dsnet/compress/internal/errors regexp/syntax net/http/internal/ascii crypto/internal/boring crypto/des crypto/hmac crypto/sha512 crypto/sha1 crypto/sha256 crypto/aes github.com/dsnet/compress vendor/golang.org/x/crypto/hkdf regexp internal/syscall/execenv internal/syscall/unix time github.com/BurntSushi/toml/internal context io/fs internal/poll internal/fmtsort encoding/binary embed internal/filepathlite crypto/internal/nistec os encoding/base64 github.com/cespare/xxhash vendor/golang.org/x/crypto/chacha20 vendor/golang.org/x/crypto/internal/poly1305 github.com/klauspost/compress/internal/snapref encoding/pem crypto/ecdh io/ioutil fmt path/filepath vendor/golang.org/x/sys/cpu os/exec vendor/golang.org/x/crypto/sha3 vendor/golang.org/x/crypto/chacha20poly1305 flag encoding/csv encoding/hex log net/url github.com/yuin/gopher-lua/pm compress/flate github.com/pkg/errors github.com/ulikunitz/xz/internal/xlog runtime/debug mime/quotedprintable github.com/yuin/gopher-lua/ast github.com/dsnet/compress/internal/prefix vendor/golang.org/x/net/http2/hpack mime net/http/internal github.com/klauspost/compress/fse encoding/json math/big vendor/golang.org/x/text/unicode/norm github.com/ulikunitz/xz/lzma github.com/yuin/gopher-lua/parse github.com/brentp/vcfgo vendor/golang.org/x/text/unicode/bidi github.com/klauspost/compress/huff0 compress/gzip github.com/klauspost/compress/flate github.com/dsnet/compress/bzip2 github.com/yuin/gopher-lua github.com/biogo/hts/bgzf github.com/ulikunitz/xz vendor/golang.org/x/text/secure/bidirule github.com/biogo/hts/bgzf/index vendor/golang.org/x/net/idna github.com/BurntSushi/toml github.com/biogo/hts/csi github.com/biogo/hts/internal github.com/biogo/hts/tabix github.com/biogo/hts/sam crypto/rand crypto/internal/boring/bbig crypto/elliptic crypto/internal/bigmod crypto/dsa encoding/asn1 crypto/ed25519 crypto/internal/hpke crypto/internal/mlkem768 github.com/klauspost/compress/zstd crypto/rsa github.com/klauspost/pgzip crypto/x509/pkix vendor/golang.org/x/crypto/cryptobyte github.com/biogo/hts/bam github.com/brentp/irelate/parsers crypto/ecdsa github.com/brentp/bix github.com/yuin/gluare github.com/brentp/irelate github.com/brentp/goluaez os/user net github.com/brentp/vcfanno/api vendor/golang.org/x/net/http/httpproxy net/textproto crypto/x509 vendor/golang.org/x/net/http/httpguts mime/multipart crypto/tls net/http/httptrace net/http github.com/shenwei356/xopen github.com/brentp/vcfanno/shared github.com/brentp/vcfanno dh_auto_test -O--buildsystem=golang cd obj-x86_64-linux-gnu && go test -vet=off -v -p 42 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared ? github.com/brentp/vcfanno/shared [no test files] testing: warning: no tests to run PASS ok github.com/brentp/vcfanno 0.005s [no tests to run] === RUN Test OK: 13 passed --- PASS: Test (0.01s) === RUN TestHandleA --- PASS: TestHandleA (0.00s) === RUN TestHandlAMulti --- PASS: TestHandlAMulti (0.00s) === RUN TestByAlt --- PASS: TestByAlt (0.00s) PASS ok github.com/brentp/vcfanno/api 0.015s create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=golang dh_prep -O--buildsystem=golang debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_auto_install -- --no-source cd obj-x86_64-linux-gnu && mkdir -p /build/reproducible-path/vcfanno-0.3.5\+ds/debian/tmp/usr cd obj-x86_64-linux-gnu && cp -r bin /build/reproducible-path/vcfanno-0.3.5\+ds/debian/tmp/usr make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_install -O--buildsystem=golang debian/rules override_dh_installdocs make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' # Regenerate bam and bam index file cat debian/missing-sources/ex.sam| samtools view -Sb - > example/ex.bam samtools index example/ex.bam example/ex.bam.bai # Remove corrupt gz file rm -rf tests/notbgz/notbgz.vcf.gz # Regenerate all .tbi files tabix example/exac.vcf.gz tabix example/fitcons.bed.gz tabix tests/astar/astar.anno.vcf.gz tabix tests/by_alt_float/annotation.tsv.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "2 41647 A G 0.591814 8.493" tabix tests/citest/at/testexon.bed.gz tabix tests/citest/dummyexons.bed.gz tabix tests/data/multiple-alts.vcf.gz tabix tests/data/number.vcf.gz tabix tests/dbnsfp/dbNSFP_example.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G A A V . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.01 0.56404 D Q96SF2 TCPQM_HUMAN 380 0.789 0.42612 P 0.542 0.47084 P 0.904520 0.08589 U 0.938783 0.885143 0.27956 N simple_aae A380V TCPQL_HUMAN A380V 2.93 0.84781 M 2.34 0.16357 T -3.1 0.63513 D NM_014406.4 A380V 0.141 0.16484 -1.0168 0.24741 T 0.0721 0.29265 T 10 5.216332 0.70443 25.6 0.99874441920417656 0.95120 0.57787 0.30213 DAEFGBI 0.140898394235071 3.051114 0.48442 0.0299346018802206 0.41293 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G C A G . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.033 0.44307 D Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 U 0.938783 0.903476 0.27629 N simple_aae A380G TCPQL_HUMAN A380G 2.93 0.84781 M 2.51 0.14293 T -2.32 0.51437 N NM_014406.4 A380G 0.103 0.10746 -0.8882 0.49115 T 0.0370 0.15942 T 10 3.370940 0.46354 22.9 0.99354601284678379 0.60415 0.63209 0.31754 DAEFGBI -0.422298261850935 1.3349 0.24762 -0.399121413419092 0.24558 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G T A D . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.004 0.65363 D Q96SF2 TCPQM_HUMAN 380 0.992 0.62897 D 0.889 0.61317 P 0.904520 0.08589 U 0.938783 0.641363 0.30591 N simple_aae A380D TCPQL_HUMAN A380D 2.93 0.84781 M 2.38 0.15849 T -3.02 0.62590 D NM_014406.4 A380D 0.399 0.45798 -0.9564 0.39865 T 0.0994 0.37051 T 10 5.077183 0.68398 25.3 0.99680235566444375 0.79002 0.61538 0.31252 DAEFGBI 0.302961726972868 3.794568 0.56349 0.143990621275748 0.47151 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C A A S . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 1.0 0.00963 T Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 N 0.938783 0.988396 0.24389 N simple_aae A380S TCPQL_HUMAN A380S 0.93 0.23636 L 2.52 0.14169 T -0.05 0.07751 N NM_014406.4 A380S 0.072 0.06067 -0.9413 0.42435 T 0.0190 0.07938 T 10 0.328585 0.12563 5.967 0.75658077739943641 0.10790 0.01742 0.05435 NAEFGBI -0.952241553466705 0.4572448 0.09664 -0.959672568167129 0.10513 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C G A P . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.168 0.22973 T Q96SF2 TCPQM_HUMAN 380 0.231 0.28914 B 0.179 0.34149 B 0.904520 0.08589 N 0.938783 0.910584 0.27489 N simple_aae A380P TCPQL_HUMAN A380P 1.83 0.48223 L 2.43 0.15268 T -2.6 0.55938 D NM_014406.4 A380P 0.246 0.30065 -0.9532 0.40439 T 0.0355 0.15290 T 10 1.588787 0.25254 13.79 0.97019856529327109 0.31467 0.02096 0.06147 NAEFGBI -0.653690275480882 0.8922109 0.17411 -0.724371843784986 0.16073 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C T A T . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.011 0.55478 D Q96SF2 TCPQM_HUMAN 380 0.62 0.38009 P 0.42 0.43281 B 0.904520 0.08589 U 0.938783 0.974599 0.25456 N simple_aae A380T TCPQL_HUMAN A380T 2.93 0.84781 M 2.38 0.15849 T -1.63 0.39092 N NM_014406.4 A380T 0.116 0.12740 -0.9890 0.32851 T 0.0565 0.23792 T 10 4.977856 0.66957 25.1 0.99619336564501015 0.75088 0.02107 0.06169 NAEFGBI -0.366914589131182 1.4564 0.26729 -0.531429606692027 0.20917 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C A G V . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.997 0.85043 D 0.001429 0.39031 U 0.000000 0.999999 0.58814 D simple_aae G379V TCPQL_HUMAN G379V 3.235 0.89818 M 0.17 0.60507 T -8.34 0.97032 D NM_014406.4 G379V 0.823 0.81093 -0.3590 0.73312 T 0.3588 0.72112 T 10 5.317930 0.71958 25.8 0.99597950363474697 0.73827 0.12361 0.17034 NAEFGBI 0.180546234526767 3.218253 0.50322 -0.032189250061603 0.38380 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C G G A . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.027 0.46462 D Q96SF2 TCPQM_HUMAN 379 0.967 0.54448 D 0.893 0.61563 P 0.001429 0.39031 U 0.000000 0.96704 0.38563 D simple_aae G379A TCPQL_HUMAN G379A 2.085 0.57921 M 0.23 0.59737 T -5.51 0.85890 D NM_014406.4 G379A 0.638 0.65489 -0.5215 0.67883 T 0.2845 0.65659 T 10 1.587093 0.25234 13.78 0.95704074870341493 0.27016 0.10995 0.16155 N AEFGBI 0.0767559827490708 2.795521 0.45442 -0.102097947215648 0.35323 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C T G E . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.998 0.87503 D 0.001429 0.39031 U 0.000000 0.987014 0.40521 D simple_aae G379E TCPQL_HUMAN G379E 3.235 0.89818 M 0.19 0.60258 T -7.3 0.94470 D NM_014406.4 G379E 0.87 0.85752 -0.3469 0.73662 T 0.3588 0.72112 T 10 4.934483 0.66331 25.0 0.99672190146911999 0.78475 0.09552 0.15110 NAEFGBI 0.180844068315063 3.219533 0.50337 -0.0319789254027045 0.38387 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C A G X . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 . . . . . . . . . . . . 0.001429 0.39031 U 0.000000 1 0.81033 D complex_aae G379* TCPQL_HUMAN G379* . . . . . . . . . . . . . . . . . . . . 10.820180 0.97019 36 0.99023181097119439 0.50228 0.42257 0.26601 N AEFGBI 0.602300241062557 5.946894 0.73340 0.306416110176004 0.56174 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C G G R . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.462289 0.74129 26.1 0.99854462032636349 0.93313 0.43619 0.26900 NAEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C T G R rs764133439 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.691531 0.77646 26.8 0.9985436076811024 0.93313 0.36787 0.25383 N AEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . 2 1.647e-05 2 1.647e-05 0 0 2 1.727e-04 0 0 0 0 0 0 0 0 21.883e-05 2 1.883e-05 0 0 2 1.783e-04 0 0 0 0 0 0 0 0 2 2.204e-05 2 2.204e-05 0 0 2 1.729e-04 0 0 0 0 0 0 0 0 . . . . TCP-1-like chaperonin intermediate domain . ." tabix tests/dbnsfp/dbNSFP_ex.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G A A V . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.01 0.56404 D Q96SF2 TCPQM_HUMAN 380 0.789 0.42612 P 0.542 0.47084 P 0.904520 0.08589 U 0.938783 0.885143 0.27956 N simple_aae A380V TCPQL_HUMAN A380V 2.93 0.84781 M 2.34 0.16357 T -3.1 0.63513 D NM_014406.4 A380V 0.141 0.16484 -1.0168 0.24741 T 0.0721 0.29265 T 10 5.216332 0.70443 25.6 0.99874441920417656 0.95120 0.57787 0.30213 DAEFGBI 0.140898394235071 3.051114 0.48442 0.0299346018802206 0.41293 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G C A G . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.033 0.44307 D Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 U 0.938783 0.903476 0.27629 N simple_aae A380G TCPQL_HUMAN A380G 2.93 0.84781 M 2.51 0.14293 T -2.32 0.51437 N NM_014406.4 A380G 0.103 0.10746 -0.8882 0.49115 T 0.0370 0.15942 T 10 3.370940 0.46354 22.9 0.99354601284678379 0.60415 0.63209 0.31754 DAEFGBI -0.422298261850935 1.3349 0.24762 -0.399121413419092 0.24558 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G T A D . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.004 0.65363 D Q96SF2 TCPQM_HUMAN 380 0.992 0.62897 D 0.889 0.61317 P 0.904520 0.08589 U 0.938783 0.641363 0.30591 N simple_aae A380D TCPQL_HUMAN A380D 2.93 0.84781 M 2.38 0.15849 T -3.02 0.62590 D NM_014406.4 A380D 0.399 0.45798 -0.9564 0.39865 T 0.0994 0.37051 T 10 5.077183 0.68398 25.3 0.99680235566444375 0.79002 0.61538 0.31252 DAEFGBI 0.302961726972868 3.794568 0.56349 0.143990621275748 0.47151 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C A A S . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 1.0 0.00963 T Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 N 0.938783 0.988396 0.24389 N simple_aae A380S TCPQL_HUMAN A380S 0.93 0.23636 L 2.52 0.14169 T -0.05 0.07751 N NM_014406.4 A380S 0.072 0.06067 -0.9413 0.42435 T 0.0190 0.07938 T 10 0.328585 0.12563 5.967 0.75658077739943641 0.10790 0.01742 0.05435 NAEFGBI -0.952241553466705 0.4572448 0.09664 -0.959672568167129 0.10513 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C G A P . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.168 0.22973 T Q96SF2 TCPQM_HUMAN 380 0.231 0.28914 B 0.179 0.34149 B 0.904520 0.08589 N 0.938783 0.910584 0.27489 N simple_aae A380P TCPQL_HUMAN A380P 1.83 0.48223 L 2.43 0.15268 T -2.6 0.55938 D NM_014406.4 A380P 0.246 0.30065 -0.9532 0.40439 T 0.0355 0.15290 T 10 1.588787 0.25254 13.79 0.97019856529327109 0.31467 0.02096 0.06147 NAEFGBI -0.653690275480882 0.8922109 0.17411 -0.724371843784986 0.16073 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C T A T . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.011 0.55478 D Q96SF2 TCPQM_HUMAN 380 0.62 0.38009 P 0.42 0.43281 B 0.904520 0.08589 U 0.938783 0.974599 0.25456 N simple_aae A380T TCPQL_HUMAN A380T 2.93 0.84781 M 2.38 0.15849 T -1.63 0.39092 N NM_014406.4 A380T 0.116 0.12740 -0.9890 0.32851 T 0.0565 0.23792 T 10 4.977856 0.66957 25.1 0.99619336564501015 0.75088 0.02107 0.06169 NAEFGBI -0.366914589131182 1.4564 0.26729 -0.531429606692027 0.20917 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C A G V . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.997 0.85043 D 0.001429 0.39031 U 0.000000 0.999999 0.58814 D simple_aae G379V TCPQL_HUMAN G379V 3.235 0.89818 M 0.17 0.60507 T -8.34 0.97032 D NM_014406.4 G379V 0.823 0.81093 -0.3590 0.73312 T 0.3588 0.72112 T 10 5.317930 0.71958 25.8 0.99597950363474697 0.73827 0.12361 0.17034 NAEFGBI 0.180546234526767 3.218253 0.50322 -0.032189250061603 0.38380 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C G G A . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.027 0.46462 D Q96SF2 TCPQM_HUMAN 379 0.967 0.54448 D 0.893 0.61563 P 0.001429 0.39031 U 0.000000 0.96704 0.38563 D simple_aae G379A TCPQL_HUMAN G379A 2.085 0.57921 M 0.23 0.59737 T -5.51 0.85890 D NM_014406.4 G379A 0.638 0.65489 -0.5215 0.67883 T 0.2845 0.65659 T 10 1.587093 0.25234 13.78 0.95704074870341493 0.27016 0.10995 0.16155 N AEFGBI 0.0767559827490708 2.795521 0.45442 -0.102097947215648 0.35323 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C T G E . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.998 0.87503 D 0.001429 0.39031 U 0.000000 0.987014 0.40521 D simple_aae G379E TCPQL_HUMAN G379E 3.235 0.89818 M 0.19 0.60258 T -7.3 0.94470 D NM_014406.4 G379E 0.87 0.85752 -0.3469 0.73662 T 0.3588 0.72112 T 10 4.934483 0.66331 25.0 0.99672190146911999 0.78475 0.09552 0.15110 NAEFGBI 0.180844068315063 3.219533 0.50337 -0.0319789254027045 0.38387 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C A G X . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 . . . . . . . . . . . . 0.001429 0.39031 U 0.000000 1 0.81033 D complex_aae G379* TCPQL_HUMAN G379* . . . . . . . . . . . . . . . . . . . . 10.820180 0.97019 36 0.99023181097119439 0.50228 0.42257 0.26601 N AEFGBI 0.602300241062557 5.946894 0.73340 0.306416110176004 0.56174 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C G G R . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.462289 0.74129 26.1 0.99854462032636349 0.93313 0.43619 0.26900 NAEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C T G R rs764133439 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.691531 0.77646 26.8 0.9985436076811024 0.93313 0.36787 0.25383 N AEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . 2 1.647e-05 2 1.647e-05 0 0 2 1.727e-04 0 0 0 0 0 0 0 0 21.883e-05 2 1.883e-05 0 0 2 1.783e-04 0 0 0 0 0 0 0 0 2 2.204e-05 2 2.204e-05 0 0 2 1.729e-04 0 0 0 0 0 0 0 0 . . . . TCP-1-like chaperonin intermediate domain . ." tabix tests/id-test/cosmic.small.vcf.gz tabix tests/id-test/dbsnp.small.vcf.gz tabix tests/id-test/small.vcf.gz tabix tests/multiple-alts/ma-db.vcf.gz tabix tests/notbgz/gno.vcf.gz tabix tests/overwrite-multiple-alts/a/whole.vcf.gz tabix tests/overwrite-multiple-alts/b/cadd_indels.vcf.gz tabix tests/overwrite-multiple-alts/b/whole_genome_snv_slice.vcf.gz tabix tests/ref-alt-test/tmp_annotation.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "1 14397 rs756427959 CTGT C 530 71 0.1340 194 71 0 460 59 0.1283 171 59 0 304 36 0.1184 116 36 0 94 11 0.1170 36 11 0" [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "1 14397 rs756427959 CTGT CT 530 0 0.0000 265 0 0 460 0 0.0000 230 0 0 304 0 0.0000 152 0 0 94 0 0.0000 47 0 0" tabix tests/ref-alt-test/tmp_calls.vcf.gz tabix tests/testVA/test-gnomad.vcf.gz tabix docs/examples/gff_sv/genes.gff3.gz dh_installdocs make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_installchangelogs -O--buildsystem=golang dh_installman -O--buildsystem=golang dh_installsystemduser -O--buildsystem=golang dh_perl -O--buildsystem=golang dh_link -O--buildsystem=golang dh_strip_nondeterminism -O--buildsystem=golang dh_compress -O--buildsystem=golang dh_fixperms -O--buildsystem=golang dh_missing -O--buildsystem=golang dh_strip -a -O--buildsystem=golang dh_makeshlibs -a -O--buildsystem=golang dh_shlibdeps -a -O--buildsystem=golang dh_installdeb -O--buildsystem=golang dh_golang -O--buildsystem=golang dh_gencontrol -O--buildsystem=golang dpkg-gencontrol: warning: Depends field of package vcfanno-examples: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package vcfanno: substitution variable ${misc:Static-Built-Using} unused, but is defined dpkg-gencontrol: warning: package vcfanno: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -O--buildsystem=golang dh_builddeb -O--buildsystem=golang dpkg-deb: building package 'vcfanno' in '../vcfanno_0.3.5+ds-2_amd64.deb'. dpkg-deb: building package 'vcfanno-dbgsym' in '../vcfanno-dbgsym_0.3.5+ds-2_amd64.deb'. dpkg-deb: building package 'vcfanno-examples' in '../vcfanno-examples_0.3.5+ds-2_all.deb'. dpkg-genbuildinfo --build=binary -O../vcfanno_0.3.5+ds-2_amd64.buildinfo dpkg-genchanges --build=binary -O../vcfanno_0.3.5+ds-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/1932583 and its subdirectories I: Current time: Sat Dec 27 05:57:32 -12 2025 I: pbuilder-time-stamp: 1766858252 Sun Nov 24 11:34:33 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Sun Nov 24 11:34:33 UTC 2024 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Sun Nov 24 11:34:33 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sun Nov 24 11:34:33 UTC 2024 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-LwQqWu' ==================================================================================== Sun Nov 24 11:34:35 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "2 vcfanno unstable /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD 0.3.5+ds-2" as arguments. Sun Nov 24 11:34:35 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-1cTFsc6v" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Nov 24 11:34:35 UTC 2024 I: Downloading source for unstable/vcfanno=0.3.5+ds-2 Reading package lists... NOTICE: 'vcfanno' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcfanno.git Please use: git clone https://salsa.debian.org/med-team/vcfanno.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2773 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (dsc) [2450 B] Get:2 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (tar) [502 kB] Get:3 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (diff) [2269 kB] Fetched 2773 kB in 0s (17.5 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'vcfanno' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcfanno.git Please use: git clone https://salsa.debian.org/med-team/vcfanno.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2773 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (dsc) [2450 B] Get:2 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (tar) [502 kB] Get:3 http://deb.debian.org/debian unstable/main vcfanno 0.3.5+ds-2 (diff) [2269 kB] Fetched 2773 kB in 0s (17.5 MB/s) Download complete and in download only mode ============================================================================= Re-Building vcfanno in unstable on amd64 on ionos1-amd64 now. Date: Sun Nov 24 11:34:36 UTC 2024 Date UTC: Sun Nov 24 11:34:36 UTC 2024 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/pbuilderrc_IOzD + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' vcfanno = debian-installer -o vcfanno = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' vcfanno = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo 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.ON0tKZMD/pbuilderrc_IOzD --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.ON0tKZMD/b2 --logfile b2/build.log vcfanno_0.3.5+ds-2.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Mon Nov 25 01:34:37 +14 2024 I: pbuilder-time-stamp: 1732448077 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [vcfanno_0.3.5+ds-2.dsc] I: copying [./vcfanno_0.3.5+ds.orig.tar.xz] I: copying [./vcfanno_0.3.5+ds-2.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Dec 19 15:49:25 2023 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./vcfanno_0.3.5+ds-2.dsc: no acceptable signature found dpkg-source: info: extracting vcfanno in vcfanno-0.3.5+ds dpkg-source: info: unpacking vcfanno_0.3.5+ds.orig.tar.xz dpkg-source: info: unpacking vcfanno_0.3.5+ds-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-archive-xopen.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-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 Nov 24 11:35 /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/3217432/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/D02_print_environment starting I: set 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]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.32(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=20 ' 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=4989900e6e6e41a3be4ee592c5c70186 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=3217432 PS4='+ ' 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.ON0tKZMD/pbuilderrc_IOzD --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.ON0tKZMD/b2 --logfile b2/build.log vcfanno_0.3.5+ds-2.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-golang, golang-any, golang-github-biogo-hts-dev, golang-gopkg-check.v1-dev, golang-github-burntsushi-toml-dev, golang-github-brentp-irelate-dev, golang-github-brentp-vcfgo-dev, golang-github-brentp-bix-dev, golang-github-shenwei356-xopen-dev, golang-github-pkg-errors-dev, golang-github-brentp-goluaez-dev, samtools, tabix dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-golang; however: Package dh-golang is not installed. pbuilder-satisfydepends-dummy depends on golang-any; however: Package golang-any is not installed. pbuilder-satisfydepends-dummy depends on golang-github-biogo-hts-dev; however: Package golang-github-biogo-hts-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-gopkg-check.v1-dev; however: Package golang-gopkg-check.v1-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-burntsushi-toml-dev; however: Package golang-github-burntsushi-toml-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-irelate-dev; however: Package golang-github-brentp-irelate-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-vcfgo-dev; however: Package golang-github-brentp-vcfgo-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-bix-dev; however: Package golang-github-brentp-bix-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-shenwei356-xopen-dev; however: Package golang-github-shenwei356-xopen-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-pkg-errors-dev; however: Package golang-github-pkg-errors-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-brentp-goluaez-dev; however: Package golang-github-brentp-goluaez-dev is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. pbuilder-satisfydepends-dummy depends on tabix; however: Package tabix is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-golang{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} golang-1.23-go{a} golang-1.23-src{a} golang-any{a} golang-github-biogo-hts-dev{a} golang-github-brentp-bix-dev{a} golang-github-brentp-goluaez-dev{a} golang-github-brentp-irelate-dev{a} golang-github-brentp-vcfgo-dev{a} golang-github-burntsushi-toml-dev{a} golang-github-cespare-xxhash-dev{a} golang-github-creack-pty-dev{a} golang-github-dsnet-compress-dev{a} golang-github-dsnet-golib-dev{a} golang-github-google-go-cmp-dev{a} golang-github-klauspost-compress-dev{a} golang-github-klauspost-pgzip-dev{a} golang-github-kr-pretty-dev{a} golang-github-kr-text-dev{a} golang-github-pkg-errors-dev{a} golang-github-rogpeppe-go-internal-dev{a} golang-github-shenwei356-xopen-dev{a} golang-github-ulikunitz-xz-dev{a} golang-github-yuin-gluare-dev{a} golang-github-yuin-goldmark-dev{a} golang-github-yuin-gopher-lua-dev{a} golang-go{a} golang-golang-x-crypto-dev{a} golang-golang-x-mod-dev{a} golang-golang-x-net-dev{a} golang-golang-x-sync-dev{a} golang-golang-x-sys-dev{a} golang-golang-x-term-dev{a} golang-golang-x-text-dev{a} golang-golang-x-tools-dev{a} golang-gopkg-check.v1-dev{a} golang-src{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpipeline1{a} libpsl5t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} po-debconf{a} samtools{a} sensible-utils{a} tabix{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx pkgconf publicsuffix wget 0 packages upgraded, 95 newly installed, 0 to remove and 0 not upgraded. Need to get 120 MB of archives. After unpacking 476 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 dh-golang all 1.62 [24.7 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 golang-1.23-src all 1.23.3-2 [19.1 MB] Get: 32 http://deb.debian.org/debian unstable/main amd64 golang-1.23-go amd64 1.23.3-2 [27.0 MB] Get: 33 http://deb.debian.org/debian unstable/main amd64 golang-src all 2:1.23~2 [5088 B] Get: 34 http://deb.debian.org/debian unstable/main amd64 golang-go amd64 2:1.23~2 [44.3 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 golang-any amd64 2:1.23~2 [5172 B] Get: 36 http://deb.debian.org/debian unstable/main amd64 golang-github-ulikunitz-xz-dev all 0.5.6-2 [352 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 golang-github-biogo-hts-dev all 1.4.5+dfsg1-1 [319 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 golang-github-pkg-errors-dev all 0.9.1-3 [12.9 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 golang-github-creack-pty-dev all 1.1.21-1 [13.0 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 golang-github-kr-text-dev all 0.2.0-2 [10.2 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-mod-dev all 0.19.0-1 [104 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-sys-dev all 0.22.0-1 [431 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-goldmark-dev all 1.7.4-1 [113 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-term-dev all 0.22.0-1 [14.8 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-text-dev all 0.16.0-1 [4003 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-crypto-dev all 1:0.25.0-1 [1682 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-net-dev all 1:0.27.0-1 [898 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-sync-dev all 0.7.0-1 [19.0 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-tools-dev all 1:0.23.0+ds-1 [1593 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 golang-github-rogpeppe-go-internal-dev all 1.12.0-3 [103 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 golang-github-kr-pretty-dev all 0.3.1-1 [11.9 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 golang-gopkg-check.v1-dev all 0.0+git20200902.038fdea-1 [32.1 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-bix-dev all 0.0~git20190718.00aa7a7+ds-2 [7608 B] Get: 54 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-gopher-lua-dev all 0.0~git20170915.0.eb1c729-5 [115 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-gluare-dev all 0.0~git20170607.d7c94f1-2 [5204 B] Get: 56 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-goluaez-dev all 0.0~git20160116.dd35d08-2 [5068 B] Get: 57 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-irelate-dev all 0.0.1+ds-1 [4136 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 golang-github-brentp-vcfgo-dev all 0.0~git20190824.654ed2e-2 [40.7 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 golang-github-burntsushi-toml-dev all 1.4.0-1 [116 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 golang-github-google-go-cmp-dev all 0.6.0-1 [86.6 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 golang-github-dsnet-golib-dev all 0.0~git20171103.1ea1667-1.1 [34.1 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 golang-github-cespare-xxhash-dev all 2.3.0-1 [10.8 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 golang-github-klauspost-compress-dev all 1.17.11+ds1-1 [33.3 MB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b6 [316 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-1+b1 [365 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.6.3-1+b1 [316 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 golang-github-dsnet-compress-dev all 0.0.2~git20230904.39efe44+dfsg1-2 [189 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 golang-github-klauspost-pgzip-dev all 1.2.6-1 [115 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 golang-github-shenwei356-xopen-dev all 0.0~git20231203.5ad79ea-1 [6204 B] Get: 73 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 77 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.4.0-1+b1 [63.6 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.11.0-1 [359 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get: 92 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.20+ds-2 [455 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 libncurses6 amd64 6.5-2+b1 [105 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 samtools amd64 1.20-3 [653 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 tabix amd64 1.20+ds-2 [486 kB] Fetched 120 MB in 6s (19.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19966 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_amd64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../23-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package dh-golang. Preparing to unpack .../29-dh-golang_1.62_all.deb ... Unpacking dh-golang (1.62) ... Selecting previously unselected package golang-1.23-src. Preparing to unpack .../30-golang-1.23-src_1.23.3-2_all.deb ... Unpacking golang-1.23-src (1.23.3-2) ... Selecting previously unselected package golang-1.23-go. Preparing to unpack .../31-golang-1.23-go_1.23.3-2_amd64.deb ... Unpacking golang-1.23-go (1.23.3-2) ... Selecting previously unselected package golang-src. Preparing to unpack .../32-golang-src_2%3a1.23~2_all.deb ... Unpacking golang-src (2:1.23~2) ... Selecting previously unselected package golang-go:amd64. Preparing to unpack .../33-golang-go_2%3a1.23~2_amd64.deb ... Unpacking golang-go:amd64 (2:1.23~2) ... Selecting previously unselected package golang-any:amd64. Preparing to unpack .../34-golang-any_2%3a1.23~2_amd64.deb ... Unpacking golang-any:amd64 (2:1.23~2) ... Selecting previously unselected package golang-github-ulikunitz-xz-dev. Preparing to unpack .../35-golang-github-ulikunitz-xz-dev_0.5.6-2_all.deb ... Unpacking golang-github-ulikunitz-xz-dev (0.5.6-2) ... Selecting previously unselected package golang-github-biogo-hts-dev. Preparing to unpack .../36-golang-github-biogo-hts-dev_1.4.5+dfsg1-1_all.deb ... Unpacking golang-github-biogo-hts-dev (1.4.5+dfsg1-1) ... Selecting previously unselected package golang-github-pkg-errors-dev. Preparing to unpack .../37-golang-github-pkg-errors-dev_0.9.1-3_all.deb ... Unpacking golang-github-pkg-errors-dev (0.9.1-3) ... Selecting previously unselected package golang-github-creack-pty-dev. Preparing to unpack .../38-golang-github-creack-pty-dev_1.1.21-1_all.deb ... Unpacking golang-github-creack-pty-dev (1.1.21-1) ... Selecting previously unselected package golang-github-kr-text-dev. Preparing to unpack .../39-golang-github-kr-text-dev_0.2.0-2_all.deb ... Unpacking golang-github-kr-text-dev (0.2.0-2) ... Selecting previously unselected package golang-golang-x-mod-dev. Preparing to unpack .../40-golang-golang-x-mod-dev_0.19.0-1_all.deb ... Unpacking golang-golang-x-mod-dev (0.19.0-1) ... Selecting previously unselected package golang-golang-x-sys-dev. Preparing to unpack .../41-golang-golang-x-sys-dev_0.22.0-1_all.deb ... Unpacking golang-golang-x-sys-dev (0.22.0-1) ... Selecting previously unselected package golang-github-yuin-goldmark-dev. Preparing to unpack .../42-golang-github-yuin-goldmark-dev_1.7.4-1_all.deb ... Unpacking golang-github-yuin-goldmark-dev (1.7.4-1) ... Selecting previously unselected package golang-golang-x-term-dev. Preparing to unpack .../43-golang-golang-x-term-dev_0.22.0-1_all.deb ... Unpacking golang-golang-x-term-dev (0.22.0-1) ... Selecting previously unselected package golang-golang-x-text-dev. Preparing to unpack .../44-golang-golang-x-text-dev_0.16.0-1_all.deb ... Unpacking golang-golang-x-text-dev (0.16.0-1) ... Selecting previously unselected package golang-golang-x-crypto-dev. Preparing to unpack .../45-golang-golang-x-crypto-dev_1%3a0.25.0-1_all.deb ... Unpacking golang-golang-x-crypto-dev (1:0.25.0-1) ... Selecting previously unselected package golang-golang-x-net-dev. Preparing to unpack .../46-golang-golang-x-net-dev_1%3a0.27.0-1_all.deb ... Unpacking golang-golang-x-net-dev (1:0.27.0-1) ... Selecting previously unselected package golang-golang-x-sync-dev. Preparing to unpack .../47-golang-golang-x-sync-dev_0.7.0-1_all.deb ... Unpacking golang-golang-x-sync-dev (0.7.0-1) ... Selecting previously unselected package golang-golang-x-tools-dev. Preparing to unpack .../48-golang-golang-x-tools-dev_1%3a0.23.0+ds-1_all.deb ... Unpacking golang-golang-x-tools-dev (1:0.23.0+ds-1) ... Selecting previously unselected package golang-github-rogpeppe-go-internal-dev. Preparing to unpack .../49-golang-github-rogpeppe-go-internal-dev_1.12.0-3_all.deb ... Unpacking golang-github-rogpeppe-go-internal-dev (1.12.0-3) ... Selecting previously unselected package golang-github-kr-pretty-dev. Preparing to unpack .../50-golang-github-kr-pretty-dev_0.3.1-1_all.deb ... Unpacking golang-github-kr-pretty-dev (0.3.1-1) ... Selecting previously unselected package golang-gopkg-check.v1-dev. Preparing to unpack .../51-golang-gopkg-check.v1-dev_0.0+git20200902.038fdea-1_all.deb ... Unpacking golang-gopkg-check.v1-dev (0.0+git20200902.038fdea-1) ... Selecting previously unselected package golang-github-brentp-bix-dev. Preparing to unpack .../52-golang-github-brentp-bix-dev_0.0~git20190718.00aa7a7+ds-2_all.deb ... Unpacking golang-github-brentp-bix-dev (0.0~git20190718.00aa7a7+ds-2) ... Selecting previously unselected package golang-github-yuin-gopher-lua-dev. Preparing to unpack .../53-golang-github-yuin-gopher-lua-dev_0.0~git20170915.0.eb1c729-5_all.deb ... Unpacking golang-github-yuin-gopher-lua-dev (0.0~git20170915.0.eb1c729-5) ... Selecting previously unselected package golang-github-yuin-gluare-dev. Preparing to unpack .../54-golang-github-yuin-gluare-dev_0.0~git20170607.d7c94f1-2_all.deb ... Unpacking golang-github-yuin-gluare-dev (0.0~git20170607.d7c94f1-2) ... Selecting previously unselected package golang-github-brentp-goluaez-dev. Preparing to unpack .../55-golang-github-brentp-goluaez-dev_0.0~git20160116.dd35d08-2_all.deb ... Unpacking golang-github-brentp-goluaez-dev (0.0~git20160116.dd35d08-2) ... Selecting previously unselected package golang-github-brentp-irelate-dev. 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Setting up golang-src (2:1.23~2) ... Setting up tabix (1.20+ds-2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b6) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Setting up golang-github-ulikunitz-xz-dev (0.5.6-2) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up golang-1.23-go (1.23.3-2) ... Setting up golang-github-dsnet-compress-dev (0.0.2~git20230904.39efe44+dfsg1-2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up golang-github-biogo-hts-dev (1.4.5+dfsg1-1) ... Setting up golang-golang-x-net-dev (1:0.27.0-1) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up golang-github-yuin-gopher-lua-dev (0.0~git20170915.0.eb1c729-5) ... Setting up golang-go:amd64 (2:1.23~2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3t64-gnutls:amd64 (8.11.0-1) ... Setting up golang-github-shenwei356-xopen-dev (0.0~git20231203.5ad79ea-1) ... Setting up golang-golang-x-tools-dev (1:0.23.0+ds-1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up golang-any:amd64 (2:1.23~2) ... Setting up golang-github-yuin-gluare-dev (0.0~git20170607.d7c94f1-2) ... Setting up libhts3t64:amd64 (1.20+ds-2) ... Setting up golang-github-rogpeppe-go-internal-dev (1.12.0-3) ... Setting up golang-github-kr-pretty-dev (0.3.1-1) ... Setting up debhelper (13.20) ... Setting up golang-gopkg-check.v1-dev (0.0+git20200902.038fdea-1) ... Setting up samtools (1.20-3) ... Setting up golang-github-brentp-bix-dev (0.0~git20190718.00aa7a7+ds-2) ... Setting up dh-golang (1.62) ... Setting up golang-github-brentp-goluaez-dev (0.0~git20160116.dd35d08-2) ... Setting up golang-github-brentp-vcfgo-dev (0.0~git20190824.654ed2e-2) ... Setting up golang-github-brentp-irelate-dev (0.0.1+ds-1) ... Processing triggers for libc-bin (2.40-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/vcfanno-0.3.5+ds/ && 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 > ../vcfanno_0.3.5+ds-2_source.changes dpkg-buildpackage: info: source package vcfanno dpkg-buildpackage: info: source version 0.3.5+ds-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Lance Lin dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=golang --with=golang debian/rules execute_before_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' find . -type f -name *.tbi | xargs rm -rf find . -type f -name ex.bam* | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_auto_clean -O--buildsystem=golang dh_autoreconf_clean -O--buildsystem=golang dh_clean -O--buildsystem=golang debian/rules binary dh binary --buildsystem=golang --with=golang dh_update_autotools_config -O--buildsystem=golang dh_autoreconf -O--buildsystem=golang dh_auto_configure -O--buildsystem=golang dh_auto_build -O--buildsystem=golang cd obj-x86_64-linux-gnu && go install -trimpath -v -p 20 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared encoding internal/race internal/itoa unicode unicode/utf8 internal/asan internal/goarch internal/unsafeheader internal/byteorder sync/atomic cmp internal/cpu internal/goos internal/goexperiment internal/profilerecord internal/runtime/atomic internal/runtime/syscall internal/godebugs math/bits internal/coverage/rtcov internal/msan unicode/utf16 log/internal github.com/dsnet/compress/bzip2/internal/sais runtime/internal/math github.com/dsnet/compress/internal crypto/internal/alias internal/abi crypto/subtle crypto/internal/boring/sig runtime/internal/sys github.com/klauspost/compress/internal/cpuinfo github.com/ulikunitz/xz/internal/hash container/list vendor/golang.org/x/crypto/cryptobyte/asn1 vendor/golang.org/x/crypto/internal/alias internal/chacha8rand internal/nettrace internal/bytealg math internal/runtime/exithook internal/stringslite runtime github.com/klauspost/compress internal/reflectlite iter sync internal/weak slices maps internal/bisect internal/testlog internal/singleflight runtime/cgo errors sort io internal/oserror path internal/godebug crypto/internal/edwards25519/field strconv crypto/internal/nistec/fiat strings bytes syscall hash container/heap crypto/internal/randutil crypto/internal/edwards25519 vendor/golang.org/x/net/dns/dnsmessage math/rand hash/crc32 hash/crc64 math/rand/v2 reflect crypto crypto/rc4 crypto/md5 internal/concurrent unique github.com/brentp/irelate/interfaces github.com/dsnet/compress/internal/errors net/http/internal/ascii regexp/syntax bufio crypto/cipher vendor/golang.org/x/text/transform net/netip github.com/dsnet/compress crypto/internal/boring crypto/des crypto/sha256 crypto/aes crypto/sha512 crypto/hmac crypto/sha1 vendor/golang.org/x/crypto/hkdf regexp internal/syscall/execenv internal/syscall/unix time io/fs internal/poll github.com/BurntSushi/toml/internal context embed internal/filepathlite crypto/internal/nistec os internal/fmtsort encoding/binary encoding/base64 github.com/cespare/xxhash github.com/klauspost/compress/internal/snapref vendor/golang.org/x/crypto/chacha20 vendor/golang.org/x/crypto/internal/poly1305 encoding/pem crypto/ecdh io/ioutil vendor/golang.org/x/sys/cpu path/filepath fmt net vendor/golang.org/x/crypto/sha3 vendor/golang.org/x/crypto/chacha20poly1305 os/exec flag net/url github.com/klauspost/compress/fse runtime/debug compress/flate encoding/hex encoding/csv log github.com/pkg/errors github.com/yuin/gopher-lua/ast github.com/ulikunitz/xz/internal/xlog github.com/dsnet/compress/internal/prefix encoding/json github.com/yuin/gopher-lua/pm vendor/golang.org/x/text/unicode/norm mime/quotedprintable vendor/golang.org/x/net/http2/hpack math/big mime net/http/internal os/user github.com/ulikunitz/xz/lzma vendor/golang.org/x/text/unicode/bidi github.com/brentp/vcfgo github.com/klauspost/compress/huff0 github.com/yuin/gopher-lua/parse github.com/dsnet/compress/bzip2 compress/gzip github.com/klauspost/compress/flate github.com/biogo/hts/bgzf github.com/yuin/gopher-lua github.com/biogo/hts/bgzf/index vendor/golang.org/x/text/secure/bidirule github.com/BurntSushi/toml github.com/biogo/hts/csi github.com/biogo/hts/internal vendor/golang.org/x/net/idna github.com/ulikunitz/xz github.com/biogo/hts/tabix github.com/biogo/hts/sam crypto/rand crypto/elliptic crypto/internal/bigmod encoding/asn1 crypto/internal/boring/bbig crypto/dsa crypto/ed25519 crypto/internal/hpke crypto/internal/mlkem768 github.com/klauspost/compress/zstd github.com/klauspost/pgzip crypto/rsa crypto/x509/pkix vendor/golang.org/x/crypto/cryptobyte crypto/ecdsa github.com/biogo/hts/bam github.com/brentp/irelate/parsers github.com/brentp/bix github.com/yuin/gluare github.com/brentp/goluaez github.com/brentp/irelate github.com/brentp/vcfanno/api net/textproto vendor/golang.org/x/net/http/httpproxy crypto/x509 vendor/golang.org/x/net/http/httpguts mime/multipart crypto/tls net/http/httptrace net/http github.com/shenwei356/xopen github.com/brentp/vcfanno/shared github.com/brentp/vcfanno dh_auto_test -O--buildsystem=golang cd obj-x86_64-linux-gnu && go test -vet=off -v -p 20 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared ? github.com/brentp/vcfanno/shared [no test files] testing: warning: no tests to run PASS ok github.com/brentp/vcfanno 0.055s [no tests to run] === RUN Test OK: 13 passed --- PASS: Test (0.11s) === RUN TestHandleA --- PASS: TestHandleA (0.00s) === RUN TestHandlAMulti --- PASS: TestHandlAMulti (0.00s) === RUN TestByAlt --- PASS: TestByAlt (0.00s) PASS ok github.com/brentp/vcfanno/api 0.152s create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=golang dh_prep -O--buildsystem=golang debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_auto_install -- --no-source cd obj-x86_64-linux-gnu && mkdir -p /build/reproducible-path/vcfanno-0.3.5\+ds/debian/tmp/usr cd obj-x86_64-linux-gnu && cp -r bin /build/reproducible-path/vcfanno-0.3.5\+ds/debian/tmp/usr make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_install -O--buildsystem=golang debian/rules override_dh_installdocs make[1]: Entering directory '/build/reproducible-path/vcfanno-0.3.5+ds' # Regenerate bam and bam index file cat debian/missing-sources/ex.sam| samtools view -Sb - > example/ex.bam samtools index example/ex.bam example/ex.bam.bai # Remove corrupt gz file rm -rf tests/notbgz/notbgz.vcf.gz # Regenerate all .tbi files tabix example/exac.vcf.gz tabix example/fitcons.bed.gz tabix tests/astar/astar.anno.vcf.gz tabix tests/by_alt_float/annotation.tsv.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "2 41647 A G 0.591814 8.493" tabix tests/citest/at/testexon.bed.gz tabix tests/citest/dummyexons.bed.gz tabix tests/data/multiple-alts.vcf.gz tabix tests/data/number.vcf.gz tabix tests/dbnsfp/dbNSFP_example.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G A A V . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.01 0.56404 D Q96SF2 TCPQM_HUMAN 380 0.789 0.42612 P 0.542 0.47084 P 0.904520 0.08589 U 0.938783 0.885143 0.27956 N simple_aae A380V TCPQL_HUMAN A380V 2.93 0.84781 M 2.34 0.16357 T -3.1 0.63513 D NM_014406.4 A380V 0.141 0.16484 -1.0168 0.24741 T 0.0721 0.29265 T 10 5.216332 0.70443 25.6 0.99874441920417656 0.95120 0.57787 0.30213 DAEFGBI 0.140898394235071 3.051114 0.48442 0.0299346018802206 0.41293 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G C A G . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.033 0.44307 D Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 U 0.938783 0.903476 0.27629 N simple_aae A380G TCPQL_HUMAN A380G 2.93 0.84781 M 2.51 0.14293 T -2.32 0.51437 N NM_014406.4 A380G 0.103 0.10746 -0.8882 0.49115 T 0.0370 0.15942 T 10 3.370940 0.46354 22.9 0.99354601284678379 0.60415 0.63209 0.31754 DAEFGBI -0.422298261850935 1.3349 0.24762 -0.399121413419092 0.24558 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G T A D . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.004 0.65363 D Q96SF2 TCPQM_HUMAN 380 0.992 0.62897 D 0.889 0.61317 P 0.904520 0.08589 U 0.938783 0.641363 0.30591 N simple_aae A380D TCPQL_HUMAN A380D 2.93 0.84781 M 2.38 0.15849 T -3.02 0.62590 D NM_014406.4 A380D 0.399 0.45798 -0.9564 0.39865 T 0.0994 0.37051 T 10 5.077183 0.68398 25.3 0.99680235566444375 0.79002 0.61538 0.31252 DAEFGBI 0.302961726972868 3.794568 0.56349 0.143990621275748 0.47151 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C A A S . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 1.0 0.00963 T Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 N 0.938783 0.988396 0.24389 N simple_aae A380S TCPQL_HUMAN A380S 0.93 0.23636 L 2.52 0.14169 T -0.05 0.07751 N NM_014406.4 A380S 0.072 0.06067 -0.9413 0.42435 T 0.0190 0.07938 T 10 0.328585 0.12563 5.967 0.75658077739943641 0.10790 0.01742 0.05435 NAEFGBI -0.952241553466705 0.4572448 0.09664 -0.959672568167129 0.10513 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C G A P . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.168 0.22973 T Q96SF2 TCPQM_HUMAN 380 0.231 0.28914 B 0.179 0.34149 B 0.904520 0.08589 N 0.938783 0.910584 0.27489 N simple_aae A380P TCPQL_HUMAN A380P 1.83 0.48223 L 2.43 0.15268 T -2.6 0.55938 D NM_014406.4 A380P 0.246 0.30065 -0.9532 0.40439 T 0.0355 0.15290 T 10 1.588787 0.25254 13.79 0.97019856529327109 0.31467 0.02096 0.06147 NAEFGBI -0.653690275480882 0.8922109 0.17411 -0.724371843784986 0.16073 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C T A T . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.011 0.55478 D Q96SF2 TCPQM_HUMAN 380 0.62 0.38009 P 0.42 0.43281 B 0.904520 0.08589 U 0.938783 0.974599 0.25456 N simple_aae A380T TCPQL_HUMAN A380T 2.93 0.84781 M 2.38 0.15849 T -1.63 0.39092 N NM_014406.4 A380T 0.116 0.12740 -0.9890 0.32851 T 0.0565 0.23792 T 10 4.977856 0.66957 25.1 0.99619336564501015 0.75088 0.02107 0.06169 NAEFGBI -0.366914589131182 1.4564 0.26729 -0.531429606692027 0.20917 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C A G V . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.997 0.85043 D 0.001429 0.39031 U 0.000000 0.999999 0.58814 D simple_aae G379V TCPQL_HUMAN G379V 3.235 0.89818 M 0.17 0.60507 T -8.34 0.97032 D NM_014406.4 G379V 0.823 0.81093 -0.3590 0.73312 T 0.3588 0.72112 T 10 5.317930 0.71958 25.8 0.99597950363474697 0.73827 0.12361 0.17034 NAEFGBI 0.180546234526767 3.218253 0.50322 -0.032189250061603 0.38380 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C G G A . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.027 0.46462 D Q96SF2 TCPQM_HUMAN 379 0.967 0.54448 D 0.893 0.61563 P 0.001429 0.39031 U 0.000000 0.96704 0.38563 D simple_aae G379A TCPQL_HUMAN G379A 2.085 0.57921 M 0.23 0.59737 T -5.51 0.85890 D NM_014406.4 G379A 0.638 0.65489 -0.5215 0.67883 T 0.2845 0.65659 T 10 1.587093 0.25234 13.78 0.95704074870341493 0.27016 0.10995 0.16155 N AEFGBI 0.0767559827490708 2.795521 0.45442 -0.102097947215648 0.35323 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C T G E . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.998 0.87503 D 0.001429 0.39031 U 0.000000 0.987014 0.40521 D simple_aae G379E TCPQL_HUMAN G379E 3.235 0.89818 M 0.19 0.60258 T -7.3 0.94470 D NM_014406.4 G379E 0.87 0.85752 -0.3469 0.73662 T 0.3588 0.72112 T 10 4.934483 0.66331 25.0 0.99672190146911999 0.78475 0.09552 0.15110 NAEFGBI 0.180844068315063 3.219533 0.50337 -0.0319789254027045 0.38387 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C A G X . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 . . . . . . . . . . . . 0.001429 0.39031 U 0.000000 1 0.81033 D complex_aae G379* TCPQL_HUMAN G379* . . . . . . . . . . . . . . . . . . . . 10.820180 0.97019 36 0.99023181097119439 0.50228 0.42257 0.26601 N AEFGBI 0.602300241062557 5.946894 0.73340 0.306416110176004 0.56174 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C G G R . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.462289 0.74129 26.1 0.99854462032636349 0.93313 0.43619 0.26900 NAEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C T G R rs764133439 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.691531 0.77646 26.8 0.9985436076811024 0.93313 0.36787 0.25383 N AEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . 2 1.647e-05 2 1.647e-05 0 0 2 1.727e-04 0 0 0 0 0 0 0 0 21.883e-05 2 1.883e-05 0 0 2 1.783e-04 0 0 0 0 0 0 0 0 2 2.204e-05 2 2.204e-05 0 0 2 1.729e-04 0 0 0 0 0 0 0 0 . . . . TCP-1-like chaperonin intermediate domain . ." tabix tests/dbnsfp/dbNSFP_ex.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G A A V . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.01 0.56404 D Q96SF2 TCPQM_HUMAN 380 0.789 0.42612 P 0.542 0.47084 P 0.904520 0.08589 U 0.938783 0.885143 0.27956 N simple_aae A380V TCPQL_HUMAN A380V 2.93 0.84781 M 2.34 0.16357 T -3.1 0.63513 D NM_014406.4 A380V 0.141 0.16484 -1.0168 0.24741 T 0.0721 0.29265 T 10 5.216332 0.70443 25.6 0.99874441920417656 0.95120 0.57787 0.30213 DAEFGBI 0.140898394235071 3.051114 0.48442 0.0299346018802206 0.41293 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G C A G . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.033 0.44307 D Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 U 0.938783 0.903476 0.27629 N simple_aae A380G TCPQL_HUMAN A380G 2.93 0.84781 M 2.51 0.14293 T -2.32 0.51437 N NM_014406.4 A380G 0.103 0.10746 -0.8882 0.49115 T 0.0370 0.15942 T 10 3.370940 0.46354 22.9 0.99354601284678379 0.60415 0.63209 0.31754 DAEFGBI -0.422298261850935 1.3349 0.24762 -0.399121413419092 0.24558 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G T A D . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.004 0.65363 D Q96SF2 TCPQM_HUMAN 380 0.992 0.62897 D 0.889 0.61317 P 0.904520 0.08589 U 0.938783 0.641363 0.30591 N simple_aae A380D TCPQL_HUMAN A380D 2.93 0.84781 M 2.38 0.15849 T -3.02 0.62590 D NM_014406.4 A380D 0.399 0.45798 -0.9564 0.39865 T 0.0994 0.37051 T 10 5.077183 0.68398 25.3 0.99680235566444375 0.79002 0.61538 0.31252 DAEFGBI 0.302961726972868 3.794568 0.56349 0.143990621275748 0.47151 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C A A S . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 1.0 0.00963 T Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 N 0.938783 0.988396 0.24389 N simple_aae A380S TCPQL_HUMAN A380S 0.93 0.23636 L 2.52 0.14169 T -0.05 0.07751 N NM_014406.4 A380S 0.072 0.06067 -0.9413 0.42435 T 0.0190 0.07938 T 10 0.328585 0.12563 5.967 0.75658077739943641 0.10790 0.01742 0.05435 NAEFGBI -0.952241553466705 0.4572448 0.09664 -0.959672568167129 0.10513 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C G A P . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.168 0.22973 T Q96SF2 TCPQM_HUMAN 380 0.231 0.28914 B 0.179 0.34149 B 0.904520 0.08589 N 0.938783 0.910584 0.27489 N simple_aae A380P TCPQL_HUMAN A380P 1.83 0.48223 L 2.43 0.15268 T -2.6 0.55938 D NM_014406.4 A380P 0.246 0.30065 -0.9532 0.40439 T 0.0355 0.15290 T 10 1.588787 0.25254 13.79 0.97019856529327109 0.31467 0.02096 0.06147 NAEFGBI -0.653690275480882 0.8922109 0.17411 -0.724371843784986 0.16073 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C T A T . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.011 0.55478 D Q96SF2 TCPQM_HUMAN 380 0.62 0.38009 P 0.42 0.43281 B 0.904520 0.08589 U 0.938783 0.974599 0.25456 N simple_aae A380T TCPQL_HUMAN A380T 2.93 0.84781 M 2.38 0.15849 T -1.63 0.39092 N NM_014406.4 A380T 0.116 0.12740 -0.9890 0.32851 T 0.0565 0.23792 T 10 4.977856 0.66957 25.1 0.99619336564501015 0.75088 0.02107 0.06169 NAEFGBI -0.366914589131182 1.4564 0.26729 -0.531429606692027 0.20917 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C A G V . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.997 0.85043 D 0.001429 0.39031 U 0.000000 0.999999 0.58814 D simple_aae G379V TCPQL_HUMAN G379V 3.235 0.89818 M 0.17 0.60507 T -8.34 0.97032 D NM_014406.4 G379V 0.823 0.81093 -0.3590 0.73312 T 0.3588 0.72112 T 10 5.317930 0.71958 25.8 0.99597950363474697 0.73827 0.12361 0.17034 NAEFGBI 0.180546234526767 3.218253 0.50322 -0.032189250061603 0.38380 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C G G A . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.027 0.46462 D Q96SF2 TCPQM_HUMAN 379 0.967 0.54448 D 0.893 0.61563 P 0.001429 0.39031 U 0.000000 0.96704 0.38563 D simple_aae G379A TCPQL_HUMAN G379A 2.085 0.57921 M 0.23 0.59737 T -5.51 0.85890 D NM_014406.4 G379A 0.638 0.65489 -0.5215 0.67883 T 0.2845 0.65659 T 10 1.587093 0.25234 13.78 0.95704074870341493 0.27016 0.10995 0.16155 N AEFGBI 0.0767559827490708 2.795521 0.45442 -0.102097947215648 0.35323 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C T G E . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.998 0.87503 D 0.001429 0.39031 U 0.000000 0.987014 0.40521 D simple_aae G379E TCPQL_HUMAN G379E 3.235 0.89818 M 0.19 0.60258 T -7.3 0.94470 D NM_014406.4 G379E 0.87 0.85752 -0.3469 0.73662 T 0.3588 0.72112 T 10 4.934483 0.66331 25.0 0.99672190146911999 0.78475 0.09552 0.15110 NAEFGBI 0.180844068315063 3.219533 0.50337 -0.0319789254027045 0.38387 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C A G X . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 . . . . . . . . . . . . 0.001429 0.39031 U 0.000000 1 0.81033 D complex_aae G379* TCPQL_HUMAN G379* . . . . . . . . . . . . . . . . . . . . 10.820180 0.97019 36 0.99023181097119439 0.50228 0.42257 0.26601 N AEFGBI 0.602300241062557 5.946894 0.73340 0.306416110176004 0.56174 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C G G R . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.462289 0.74129 26.1 0.99854462032636349 0.93313 0.43619 0.26900 NAEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C T G R rs764133439 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.691531 0.77646 26.8 0.9985436076811024 0.93313 0.36787 0.25383 N AEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . 2 1.647e-05 2 1.647e-05 0 0 2 1.727e-04 0 0 0 0 0 0 0 0 21.883e-05 2 1.883e-05 0 0 2 1.783e-04 0 0 0 0 0 0 0 0 2 2.204e-05 2 2.204e-05 0 0 2 1.729e-04 0 0 0 0 0 0 0 0 . . . . TCP-1-like chaperonin intermediate domain . ." tabix tests/id-test/cosmic.small.vcf.gz tabix tests/id-test/dbsnp.small.vcf.gz tabix tests/id-test/small.vcf.gz tabix tests/multiple-alts/ma-db.vcf.gz tabix tests/notbgz/gno.vcf.gz tabix tests/overwrite-multiple-alts/a/whole.vcf.gz tabix tests/overwrite-multiple-alts/b/cadd_indels.vcf.gz tabix tests/overwrite-multiple-alts/b/whole_genome_snv_slice.vcf.gz tabix tests/ref-alt-test/tmp_annotation.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "1 14397 rs756427959 CTGT C 530 71 0.1340 194 71 0 460 59 0.1283 171 59 0 304 36 0.1184 116 36 0 94 11 0.1170 36 11 0" [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "1 14397 rs756427959 CTGT CT 530 0 0.0000 265 0 0 460 0 0.0000 230 0 0 304 0 0.0000 152 0 0 94 0 0.0000 47 0 0" tabix tests/ref-alt-test/tmp_calls.vcf.gz tabix tests/testVA/test-gnomad.vcf.gz tabix docs/examples/gff_sv/genes.gff3.gz dh_installdocs make[1]: Leaving directory '/build/reproducible-path/vcfanno-0.3.5+ds' dh_installchangelogs -O--buildsystem=golang dh_installman -O--buildsystem=golang dh_installsystemduser -O--buildsystem=golang dh_perl -O--buildsystem=golang dh_link -O--buildsystem=golang dh_strip_nondeterminism -O--buildsystem=golang dh_compress -O--buildsystem=golang dh_fixperms -O--buildsystem=golang dh_missing -O--buildsystem=golang dh_strip -a -O--buildsystem=golang dh_makeshlibs -a -O--buildsystem=golang dh_shlibdeps -a -O--buildsystem=golang dh_installdeb -O--buildsystem=golang dh_golang -O--buildsystem=golang dh_gencontrol -O--buildsystem=golang dpkg-gencontrol: warning: Depends field of package vcfanno-examples: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package vcfanno: substitution variable ${misc:Static-Built-Using} unused, but is defined dpkg-gencontrol: warning: package vcfanno: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -O--buildsystem=golang dh_builddeb -O--buildsystem=golang dpkg-deb: building package 'vcfanno-examples' in '../vcfanno-examples_0.3.5+ds-2_all.deb'. dpkg-deb: building package 'vcfanno-dbgsym' in '../vcfanno-dbgsym_0.3.5+ds-2_amd64.deb'. dpkg-deb: building package 'vcfanno' in '../vcfanno_0.3.5+ds-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../vcfanno_0.3.5+ds-2_amd64.buildinfo dpkg-genchanges --build=binary -O../vcfanno_0.3.5+ds-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3217432/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/3217432 and its subdirectories I: Current time: Mon Nov 25 01:41:44 +14 2024 I: pbuilder-time-stamp: 1732448504 + false + set +x Sun Nov 24 11:41:44 UTC 2024 I: Signing ./b2/vcfanno_0.3.5+ds-2_amd64.buildinfo as vcfanno_0.3.5+ds-2_amd64.buildinfo.asc Sun Nov 24 11:41:45 UTC 2024 I: Signed ./b2/vcfanno_0.3.5+ds-2_amd64.buildinfo as ./b2/vcfanno_0.3.5+ds-2_amd64.buildinfo.asc Sun Nov 24 11:41:45 UTC 2024 - build #2 for vcfanno/unstable/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Sun Nov 24 11:41:45 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-1cTFsc6v, removing. /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD: total 96 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 11:34 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 11:41 b2 -rw------- 1 jenkins jenkins 81668 Nov 24 11:34 rbuildlog.0PndFlI -rw-r--r-- 1 jenkins jenkins 2450 Dec 19 2023 vcfanno_0.3.5+ds-2.dsc /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/b1: total 13160 -rw-r--r-- 1 jenkins jenkins 77815 Nov 24 11:34 build.log -rw-r--r-- 1 jenkins jenkins 2758356 Nov 24 11:34 vcfanno-dbgsym_0.3.5+ds-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 5713764 Nov 24 11:34 vcfanno-examples_0.3.5+ds-2_all.deb -rw-r--r-- 1 jenkins jenkins 2269072 Nov 24 11:34 vcfanno_0.3.5+ds-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2450 Nov 24 11:34 vcfanno_0.3.5+ds-2.dsc -rw-r--r-- 1 jenkins jenkins 8094 Nov 24 11:34 vcfanno_0.3.5+ds-2_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 8976 Nov 24 11:34 vcfanno_0.3.5+ds-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1857 Nov 24 11:34 vcfanno_0.3.5+ds-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 2589020 Nov 24 11:34 vcfanno_0.3.5+ds-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1318 Nov 24 11:34 vcfanno_0.3.5+ds-2_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/b2: total 13136 -rw-r--r-- 1 jenkins jenkins 79736 Nov 24 11:41 build.log -rw-r--r-- 1 jenkins jenkins 2758356 Nov 24 11:41 vcfanno-dbgsym_0.3.5+ds-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 5713764 Nov 24 11:41 vcfanno-examples_0.3.5+ds-2_all.deb -rw-r--r-- 1 jenkins jenkins 2269072 Nov 24 11:41 vcfanno_0.3.5+ds-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2450 Nov 24 11:41 vcfanno_0.3.5+ds-2.dsc -rw-r--r-- 1 jenkins jenkins 8085 Nov 24 11:41 vcfanno_0.3.5+ds-2_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 8967 Nov 24 11:41 vcfanno_0.3.5+ds-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1857 Nov 24 11:41 vcfanno_0.3.5+ds-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 2589020 Nov 24 11:41 vcfanno_0.3.5+ds-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1318 Nov 24 11:41 vcfanno_0.3.5+ds-2_source.changes Sun Nov 24 11:41:46 UTC 2024 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Sun Nov 24 11:41:46 UTC 2024 I: vcfanno_0.3.5+ds-2_amd64.changes: Format: 1.8 Date: Mon, 18 Dec 2023 22:24:37 +0700 Source: vcfanno Binary: vcfanno vcfanno-dbgsym vcfanno-examples Architecture: amd64 all Version: 0.3.5+ds-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Lance Lin Description: vcfanno - annotate a VCF with other VCFs/BEDs/tabixed files vcfanno-examples - examples for vcfanno: annotate a VCF with other VCFs/BEDs/tabixed Closes: 1049212 1049762 Changes: vcfanno (0.3.5+ds-2) unstable; urgency=medium . * Team upload. * d/rules: Clean generated files from override_dh_installdocs (Closes: #1049212, #1049762) Checksums-Sha1: 1c69bc6cc4e52408246c5f461a4e823c4448a4b1 2758356 vcfanno-dbgsym_0.3.5+ds-2_amd64.deb 06fdd55012f12de15c1028673150f7e98e4a3efb 5713764 vcfanno-examples_0.3.5+ds-2_all.deb 850361ea349e9eba7a79304969ea7519c0ce69a0 8094 vcfanno_0.3.5+ds-2_amd64.buildinfo 0c80e798e802521f7f0e5ddaa63477e7e0a65df7 2589020 vcfanno_0.3.5+ds-2_amd64.deb Checksums-Sha256: 5105504599b84d175c200a2653f21e024c8bce3413711049e2c961ed5fada41d 2758356 vcfanno-dbgsym_0.3.5+ds-2_amd64.deb 2ec0c85cb1912032e0a1852ced398e331ed63d80231879a81717908e0bfea696 5713764 vcfanno-examples_0.3.5+ds-2_all.deb fd05cf3e054cb55fe66262cd08c4052268304f035b9aaf76d2c6c683a092271c 8094 vcfanno_0.3.5+ds-2_amd64.buildinfo 467fc6d49d3d0fdd006df0d0570581cba02c77e5953f11999e2124d98ab1ab3a 2589020 vcfanno_0.3.5+ds-2_amd64.deb Files: 1bb24c275cc59292e3553c12fa81d5e3 2758356 debug optional vcfanno-dbgsym_0.3.5+ds-2_amd64.deb 8d10fe99dd8eecabb0a08f503f1770b3 5713764 science optional vcfanno-examples_0.3.5+ds-2_all.deb 2c2143282e85d54b7ed7ad7acd69f400 8094 science optional vcfanno_0.3.5+ds-2_amd64.buildinfo 55c82af200876ad92ec8e4eb2dfa5b9d 2589020 science optional vcfanno_0.3.5+ds-2_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/vcfanno_0.3.5+ds-2.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/vcfanno_0.3.5+ds-2.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/vcfanno_0.3.5+ds-2.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/vcfanno_0.3.5+ds-2.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/amd64/vcfanno_0.3.5+ds-2_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/vcfanno_0.3.5+ds-2.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2024-11-24 11:34:33.051828078 +0000 +++ b2/build.log 2024-11-24 11:41:45.884237861 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Dec 27 05:55:38 -12 2025 -I: pbuilder-time-stamp: 1766858138 +I: Current time: Mon Nov 25 01:34:37 +14 2024 +I: pbuilder-time-stamp: 1732448077 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -28,52 +28,84 @@ dpkg-source: info: applying use-archive-xopen.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1932583/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-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 Nov 24 11:35 /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/3217432/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3217432/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=42 ' - 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]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.32(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=20 ' + 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='d3ea32b6359d4b0f89e7dc7413fab368' - 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='1932583' - PS1='# ' - PS2='> ' + INVOCATION_ID=4989900e6e6e41a3be4ee592c5c70186 + 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=3217432 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.ON0tKZMD/pbuilderrc_xasQ --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.ON0tKZMD/b1 --logfile b1/build.log vcfanno_0.3.5+ds-2.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + 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.ON0tKZMD/pbuilderrc_IOzD --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.ON0tKZMD/b2 --logfile b2/build.log vcfanno_0.3.5+ds-2.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1932583/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -230,7 +262,7 @@ Get: 93 http://deb.debian.org/debian unstable/main amd64 libncurses6 amd64 6.5-2+b1 [105 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 samtools amd64 1.20-3 [653 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 tabix amd64 1.20+ds-2 [486 kB] -Fetched 120 MB in 4s (33.9 MB/s) +Fetched 120 MB in 6s (19.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19966 files and directories currently installed.) @@ -625,7 +657,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/vcfanno-0.3.5+ds/ && 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 > ../vcfanno_0.3.5+ds-2_source.changes +I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/vcfanno-0.3.5+ds/ && 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 > ../vcfanno_0.3.5+ds-2_source.changes dpkg-buildpackage: info: source package vcfanno dpkg-buildpackage: info: source version 0.3.5+ds-2 dpkg-buildpackage: info: source distribution unstable @@ -648,198 +684,198 @@ dh_autoreconf -O--buildsystem=golang dh_auto_configure -O--buildsystem=golang dh_auto_build -O--buildsystem=golang - cd obj-x86_64-linux-gnu && go install -trimpath -v -p 42 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared + cd obj-x86_64-linux-gnu && go install -trimpath -v -p 20 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared encoding -internal/godebugs internal/race -internal/byteorder -crypto/internal/alias -log/internal -cmp -internal/asan -internal/unsafeheader +internal/itoa unicode -internal/coverage/rtcov -internal/goos -vendor/golang.org/x/crypto/internal/alias -github.com/dsnet/compress/bzip2/internal/sais -unicode/utf16 unicode/utf8 -internal/nettrace -github.com/klauspost/compress/internal/cpuinfo -vendor/golang.org/x/crypto/cryptobyte/asn1 +internal/asan internal/goarch -container/list -crypto/subtle -internal/itoa -github.com/dsnet/compress/internal -internal/msan +internal/unsafeheader +internal/byteorder sync/atomic -crypto/internal/boring/sig +cmp internal/cpu -math/bits +internal/goos +internal/goexperiment internal/profilerecord -internal/runtime/syscall internal/runtime/atomic -github.com/ulikunitz/xz/internal/hash -internal/goexperiment +internal/runtime/syscall +internal/godebugs +math/bits +internal/coverage/rtcov +internal/msan +unicode/utf16 +log/internal +github.com/dsnet/compress/bzip2/internal/sais runtime/internal/math -runtime/internal/sys +github.com/dsnet/compress/internal +crypto/internal/alias internal/abi +crypto/subtle +crypto/internal/boring/sig +runtime/internal/sys +github.com/klauspost/compress/internal/cpuinfo +github.com/ulikunitz/xz/internal/hash +container/list +vendor/golang.org/x/crypto/cryptobyte/asn1 +vendor/golang.org/x/crypto/internal/alias internal/chacha8rand +internal/nettrace internal/bytealg math internal/runtime/exithook internal/stringslite runtime github.com/klauspost/compress -iter -internal/weak internal/reflectlite +iter sync -maps +internal/weak slices -internal/singleflight +maps internal/bisect internal/testlog +internal/singleflight runtime/cgo -internal/godebug errors -io sort -strconv +io internal/oserror path +internal/godebug crypto/internal/edwards25519/field -vendor/golang.org/x/net/dns/dnsmessage -math/rand -math/rand/v2 +strconv crypto/internal/nistec/fiat +strings +bytes syscall -crypto/internal/randutil hash -bytes -strings +container/heap +crypto/internal/randutil +crypto/internal/edwards25519 +vendor/golang.org/x/net/dns/dnsmessage +math/rand hash/crc32 hash/crc64 -internal/concurrent -crypto/internal/edwards25519 -container/heap -unique +math/rand/v2 +reflect crypto crypto/rc4 -reflect -vendor/golang.org/x/text/transform -crypto/cipher crypto/md5 -net/netip +internal/concurrent +unique github.com/brentp/irelate/interfaces -bufio github.com/dsnet/compress/internal/errors -regexp/syntax net/http/internal/ascii +regexp/syntax +bufio +crypto/cipher +vendor/golang.org/x/text/transform +net/netip +github.com/dsnet/compress crypto/internal/boring crypto/des -crypto/hmac -crypto/sha512 -crypto/sha1 crypto/sha256 crypto/aes -github.com/dsnet/compress +crypto/sha512 +crypto/hmac +crypto/sha1 vendor/golang.org/x/crypto/hkdf regexp internal/syscall/execenv internal/syscall/unix time -github.com/BurntSushi/toml/internal -context io/fs internal/poll -internal/fmtsort -encoding/binary +github.com/BurntSushi/toml/internal +context embed internal/filepathlite crypto/internal/nistec os +internal/fmtsort +encoding/binary encoding/base64 github.com/cespare/xxhash +github.com/klauspost/compress/internal/snapref vendor/golang.org/x/crypto/chacha20 vendor/golang.org/x/crypto/internal/poly1305 -github.com/klauspost/compress/internal/snapref encoding/pem crypto/ecdh io/ioutil -fmt -path/filepath vendor/golang.org/x/sys/cpu -os/exec +path/filepath +fmt +net vendor/golang.org/x/crypto/sha3 vendor/golang.org/x/crypto/chacha20poly1305 +os/exec flag -encoding/csv -encoding/hex -log net/url -github.com/yuin/gopher-lua/pm +github.com/klauspost/compress/fse +runtime/debug compress/flate +encoding/hex +encoding/csv +log github.com/pkg/errors -github.com/ulikunitz/xz/internal/xlog -runtime/debug -mime/quotedprintable github.com/yuin/gopher-lua/ast +github.com/ulikunitz/xz/internal/xlog github.com/dsnet/compress/internal/prefix +encoding/json +github.com/yuin/gopher-lua/pm +vendor/golang.org/x/text/unicode/norm +mime/quotedprintable vendor/golang.org/x/net/http2/hpack +math/big mime net/http/internal -github.com/klauspost/compress/fse -encoding/json -math/big -vendor/golang.org/x/text/unicode/norm +os/user github.com/ulikunitz/xz/lzma -github.com/yuin/gopher-lua/parse -github.com/brentp/vcfgo vendor/golang.org/x/text/unicode/bidi +github.com/brentp/vcfgo github.com/klauspost/compress/huff0 +github.com/yuin/gopher-lua/parse +github.com/dsnet/compress/bzip2 compress/gzip github.com/klauspost/compress/flate -github.com/dsnet/compress/bzip2 -github.com/yuin/gopher-lua github.com/biogo/hts/bgzf -github.com/ulikunitz/xz -vendor/golang.org/x/text/secure/bidirule +github.com/yuin/gopher-lua github.com/biogo/hts/bgzf/index -vendor/golang.org/x/net/idna +vendor/golang.org/x/text/secure/bidirule github.com/BurntSushi/toml github.com/biogo/hts/csi github.com/biogo/hts/internal +vendor/golang.org/x/net/idna +github.com/ulikunitz/xz github.com/biogo/hts/tabix github.com/biogo/hts/sam crypto/rand -crypto/internal/boring/bbig crypto/elliptic crypto/internal/bigmod -crypto/dsa encoding/asn1 +crypto/internal/boring/bbig +crypto/dsa crypto/ed25519 crypto/internal/hpke crypto/internal/mlkem768 github.com/klauspost/compress/zstd -crypto/rsa github.com/klauspost/pgzip +crypto/rsa crypto/x509/pkix vendor/golang.org/x/crypto/cryptobyte +crypto/ecdsa github.com/biogo/hts/bam github.com/brentp/irelate/parsers -crypto/ecdsa github.com/brentp/bix github.com/yuin/gluare -github.com/brentp/irelate github.com/brentp/goluaez -os/user -net +github.com/brentp/irelate github.com/brentp/vcfanno/api -vendor/golang.org/x/net/http/httpproxy net/textproto +vendor/golang.org/x/net/http/httpproxy crypto/x509 vendor/golang.org/x/net/http/httpguts mime/multipart @@ -850,14 +886,14 @@ github.com/brentp/vcfanno/shared github.com/brentp/vcfanno dh_auto_test -O--buildsystem=golang - cd obj-x86_64-linux-gnu && go test -vet=off -v -p 42 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared + cd obj-x86_64-linux-gnu && go test -vet=off -v -p 20 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared ? github.com/brentp/vcfanno/shared [no test files] testing: warning: no tests to run PASS -ok github.com/brentp/vcfanno 0.005s [no tests to run] +ok github.com/brentp/vcfanno 0.055s [no tests to run] === RUN Test OK: 13 passed ---- PASS: Test (0.01s) +--- PASS: Test (0.11s) === RUN TestHandleA --- PASS: TestHandleA (0.00s) === RUN TestHandlAMulti @@ -865,7 +901,7 @@ === RUN TestByAlt --- PASS: TestByAlt (0.00s) PASS -ok github.com/brentp/vcfanno/api 0.015s +ok github.com/brentp/vcfanno/api 0.152s create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=golang dh_prep -O--buildsystem=golang @@ -982,9 +1018,9 @@ dpkg-gencontrol: warning: package vcfanno: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -O--buildsystem=golang dh_builddeb -O--buildsystem=golang -dpkg-deb: building package 'vcfanno' in '../vcfanno_0.3.5+ds-2_amd64.deb'. -dpkg-deb: building package 'vcfanno-dbgsym' in '../vcfanno-dbgsym_0.3.5+ds-2_amd64.deb'. dpkg-deb: building package 'vcfanno-examples' in '../vcfanno-examples_0.3.5+ds-2_all.deb'. +dpkg-deb: building package 'vcfanno-dbgsym' in '../vcfanno-dbgsym_0.3.5+ds-2_amd64.deb'. +dpkg-deb: building package 'vcfanno' in '../vcfanno_0.3.5+ds-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../vcfanno_0.3.5+ds-2_amd64.buildinfo dpkg-genchanges --build=binary -O../vcfanno_0.3.5+ds-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -992,12 +1028,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3217432/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3217432/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/1932583 and its subdirectories -I: Current time: Sat Dec 27 05:57:32 -12 2025 -I: pbuilder-time-stamp: 1766858252 +I: removing directory /srv/workspace/pbuilder/3217432 and its subdirectories +I: Current time: Mon Nov 25 01:41:44 +14 2024 +I: pbuilder-time-stamp: 1732448504 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/vcfanno_0.3.5+ds-2.diff: 70.4% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/vcfanno_0.3.5+ds-2.diff.gz b2/build.log: 82.1% -- replaced with stdout Compressing the 1st log... b1/build.log: 82.6% -- replaced with stdout Sun Nov 24 11:41:47 UTC 2024 I: diffoscope 283 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_vcfanno_unstable_amd64_1732448507 + touch /var/log/reproducible-builds/diffoscope_stamp_vcfanno_unstable_amd64_1732448507 + RESULT=0 + systemd-run '--description=diffoscope on vcfanno/0.3.5+ds-2 in unstable/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_26-24502 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD --run-session -c jenkins-reproducible-unstable-diffoscope-969ab5e3-0c1b-4223-8c1c-079da8679ada -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/dbd-tmp-QfBO3O9 ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/vcfanno_0.3.5+ds-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/vcfanno_0.3.5+ds-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/vcfanno_0.3.5+ds-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/b1/vcfanno_0.3.5+ds-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/b2/vcfanno_0.3.5+ds-2_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_26-24502.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/vcfanno_0.3.5+ds-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/vcfanno_0.3.5+ds-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/vcfanno_0.3.5+ds-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/b1/vcfanno_0.3.5+ds-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ON0tKZMD/b2/vcfanno_0.3.5+ds-2_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.455s) 0.455s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.113s) 0.113s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 774ms CPU time consumed: 757ms __ __ _____ / _| __ _ _ __ _ __ ___ \ \ / / __| |_ / _` | '_ \| '_ \ / _ \ \ V / (__| _| (_| | | | | | | | (_) | \_/ \___|_| \__,_|_| |_|_| |_|\___/ Sun Nov 24 11:41:48 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Sun Nov 24 11:41:48 UTC 2024 I: vcfanno from unstable built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2024-11-24 11:41:49] INFO: Starting at 2024-11-24 11:41:49.390674 [2024-11-24 11:41:49] INFO: Generating the pages of 1 package(s) [2024-11-24 11:41:49] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/amd64/vcfanno didn't produce a buildlog, even though it has been built. [2024-11-24 11:41:49] INFO: Finished at 2024-11-24 11:41:49.811257, took: 0:00:00.420591 Sun Nov 24 11:41:49 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/vcfanno.html Sun Nov 24 11:41:49 UTC 2024 I: Submitting .buildinfo files to external archives: Sun Nov 24 11:41:49 UTC 2024 I: Submitting 12K b1/vcfanno_0.3.5+ds-2_amd64.buildinfo.asc https://buildinfo.debian.net/850361ea349e9eba7a79304969ea7519c0ce69a0/vcfanno_0.3.5+ds-2_all Sun Nov 24 11:41:51 UTC 2024 I: Submitting 12K b2/vcfanno_0.3.5+ds-2_amd64.buildinfo.asc https://buildinfo.debian.net/34419668703db4b0734956eb519b93ed665f0cf3/vcfanno_0.3.5+ds-2_all Sun Nov 24 11:41:53 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Nov 24 11:41:53 UTC 2024 I: Done submitting .buildinfo files. Sun Nov 24 11:41:53 UTC 2024 I: Removing signed vcfanno_0.3.5+ds-2_amd64.buildinfo.asc files: removed './b1/vcfanno_0.3.5+ds-2_amd64.buildinfo.asc' removed './b2/vcfanno_0.3.5+ds-2_amd64.buildinfo.asc' 1732448513 amd64 unstable vcfanno Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/vcfanno_0.3.5+ds-2.rbuild.log: 80.5% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/vcfanno_0.3.5+ds-2.rbuild.log.gz [2024-11-24 11:41:53] INFO: Starting at 2024-11-24 11:41:53.992229 [2024-11-24 11:41:54] INFO: Generating the pages of 1 package(s) [2024-11-24 11:41:54] INFO: Finished at 2024-11-24 11:41:54.328616, took: 0:00:00.336395 All cleanup done. Sun Nov 24 11:41:54 UTC 2024 - total duration: 0h 9m 20s. Sun Nov 24 11:41:54 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-HMdP1Ipk, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 9min 26.336s CPU time consumed: 7.611s