Mon May 22 06:43:25 UTC 2023 I: starting to build libbio-samtools-perl/bookworm/arm64 on jenkins on '2023-05-22 06:43' Mon May 22 06:43:25 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_15/17701/console.log Mon May 22 06:43:25 UTC 2023 I: Downloading source for bookworm/libbio-samtools-perl=1.43-3 --2023-05-22 06:43:26-- http://cdn-fastly.deb.debian.org/debian/pool/main/libb/libbio-samtools-perl/libbio-samtools-perl_1.43-3.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2217 (2.2K) [text/prs.lines.tag] Saving to: ‘libbio-samtools-perl_1.43-3.dsc’ 0K .. 100% 219M=0s 2023-05-22 06:43:26 (219 MB/s) - ‘libbio-samtools-perl_1.43-3.dsc’ saved [2217/2217] Mon May 22 06:43:26 UTC 2023 I: libbio-samtools-perl_1.43-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: libbio-samtools-perl Binary: libbio-samtools-perl Architecture: any Version: 1.43-3 Maintainer: Debian Perl Group Uploaders: Charles Plessy Homepage: https://metacpan.org/release/Bio-SamTools Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/perl-team/modules/packages/libbio-samtools-perl Vcs-Git: https://salsa.debian.org/perl-team/modules/packages/libbio-samtools-perl.git Testsuite: autopkgtest-pkg-perl Build-Depends: debhelper-compat (= 13), perl-xs-dev, perl:native, libmodule-build-perl, zlib1g-dev, libbam-dev, libbio-perl-perl Package-List: libbio-samtools-perl deb perl optional arch=any Checksums-Sha1: 140779726f17ef29f1a6028b34ed836d0a85f24c 340833 libbio-samtools-perl_1.43.orig.tar.gz 095b25e7f160766ab96bf961d496e35b62846131 8324 libbio-samtools-perl_1.43-3.debian.tar.xz Checksums-Sha256: 7085ee5e97ad75dbbebd8583072d67b2b06d29e7a9f9741c9ac58dabe300d3fd 340833 libbio-samtools-perl_1.43.orig.tar.gz d4c4b834dc2e8b0e157b26c9f4f4651d5217b7dca571dab2995daeabf39960e9 8324 libbio-samtools-perl_1.43-3.debian.tar.xz Files: d36d7bfe91d6eaa8d220a2cb08d04a94 340833 libbio-samtools-perl_1.43.orig.tar.gz 3e66041e8484ac202de3b21e389c0a12 8324 libbio-samtools-perl_1.43-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl7clwwRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGuaA//U7iZuY+CzYKJqBV4tPeM5Uy7aUqrurEd 6yvHystWv4L5wHur1NWOSGkO7FceA/tlGkFtpgWSWLjdUuwEh3TS33QboZNjPTjS namAJAFfwxd0cbxSuB3YlxgnlbKapKFReozNJ4X8jjm5k1LVyd2zTMn3qXLT6QCN IuuY9W7tzpEYCdkoZu0ujzQA6/+CNrhm02gn4a3hq3KJSLFkJ2G8dxl4hmBnkJFY HrNLccvC+oaIIzfE6aCFQohx3bnjo1TiqdgROnnFc/lgW/2Y95/hLZ+lU2N44WFE q26A5kR0Iz4c48UzDLXcOhGcrpjac8Rtrw9aLpoy41evgdY3nqHs1+a9vqtGZAr7 cnQzve8+zBibjlfWU3D1P9cnmy0xVoSPZkVS87FL59mc9Afmk0dhtToXYN5ulOz2 QMNLA7aT5JxABp5bk5wE/KR15sQNvfebv1gFDaK8iYjCFh5U6QVgWtu2iUeP5R+S ATR7h+7KBwbURU9aGoSQ1UmsHn8anhcoXBO24AflLxDi0IQWEPeb0SkCgWMebSJZ TZnLyWkiTxRG7LmElktG0qbvyLNFH5P2CPUCE/UphP4uyEW9W6V82A2zNkn3XEIF 0ySrN10hh14LGZIQ424jlAul2yUlTUY+MZfUyFd0fSwzSvB+UGnXExLBnsG4FjCM 2Xic7Z+oDH4= =uMkX -----END PGP SIGNATURE----- Mon May 22 06:43:26 UTC 2023 I: Checking whether the package is not for us Mon May 22 06:43:26 UTC 2023 I: Starting 1st build on remote node codethink12-arm64.debian.net. Mon May 22 06:43:26 UTC 2023 I: Preparing to do remote build '1' on codethink12-arm64.debian.net. Mon May 22 06:44:32 UTC 2023 I: Deleting $TMPDIR on codethink12-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun May 21 18:43:29 -12 2023 I: pbuilder-time-stamp: 1684737809 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-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 [libbio-samtools-perl_1.43-3.dsc] I: copying [./libbio-samtools-perl_1.43.orig.tar.gz] I: copying [./libbio-samtools-perl_1.43-3.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Jun 6 19:28:12 2020 -12 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 ./libbio-samtools-perl_1.43-3.dsc: no acceptable signature found dpkg-source: info: extracting libbio-samtools-perl in libbio-samtools-perl-1.43 dpkg-source: info: unpacking libbio-samtools-perl_1.43.orig.tar.gz dpkg-source: info: unpacking libbio-samtools-perl_1.43-3.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/25916/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8 ' DISTRIBUTION='bookworm' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' 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='25916' 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.HWdfrDc8/pbuilderrc_KtQS --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.HWdfrDc8/b1 --logfile b1/build.log libbio-samtools-perl_1.43-3.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink12-arm64 4.15.0-211-generic #222-Ubuntu SMP Tue Apr 18 18:58:27 UTC 2023 aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 20 22:26 /bin -> usr/bin I: user script /srv/workspace/pbuilder/25916/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: arm64 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), perl-xs-dev, perl:native, libmodule-build-perl, zlib1g-dev, libbam-dev, libbio-perl-perl dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19616 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 perl-xs-dev; however: Package perl-xs-dev is not installed. pbuilder-satisfydepends-dummy depends on perl:native. pbuilder-satisfydepends-dummy depends on libmodule-build-perl; however: Package libmodule-build-perl is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbam-dev; however: Package libbam-dev is not installed. pbuilder-satisfydepends-dummy depends on libbio-perl-perl; however: Package libbio-perl-perl 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-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbam-dev{a} libbio-perl-perl{a} libdata-stag-perl{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} libio-string-perl{a} libmagic-mgc{a} libmagic1{a} libmodule-build-perl{a} libperl-dev{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bioperl-run curl libace-perl libalgorithm-munkres-perl libarchive-cpio-perl libarray-compare-perl libbio-asn1-entrezgene-perl libbio-perl-run-perl libclone-perl libconvert-binary-c-perl libdbd-mysql-perl libdbd-pg-perl libdbd-sqlite3-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libhtml-tableextract-perl liblist-moreutils-perl libltdl-dev libmail-sendmail-perl libmldbm-perl libmodule-signature-perl libpod-readme-perl libpostscript-perl libset-scalar-perl libsoap-lite-perl libsoftware-license-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-graph-perl libsvg-perl liburi-perl libwww-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-libxslt-perl libxml-parser-perl libxml-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl lynx perl-tk wget 0 packages upgraded, 37 newly installed, 0 to remove and 0 not upgraded. Need to get 23.6 MB of archives. After unpacking 91.2 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main arm64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main arm64 libmagic-mgc arm64 1:5.44-3 [305 kB] Get: 3 http://deb.debian.org/debian bookworm/main arm64 libmagic1 arm64 1:5.44-3 [98.5 kB] Get: 4 http://deb.debian.org/debian bookworm/main arm64 file arm64 1:5.44-3 [42.5 kB] Get: 5 http://deb.debian.org/debian bookworm/main arm64 gettext-base arm64 0.21-12 [159 kB] Get: 6 http://deb.debian.org/debian bookworm/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 7 http://deb.debian.org/debian bookworm/main arm64 groff-base arm64 1.22.4-10 [861 kB] Get: 8 http://deb.debian.org/debian bookworm/main arm64 bsdextrautils arm64 2.38.1-5+b1 [86.9 kB] Get: 9 http://deb.debian.org/debian bookworm/main arm64 libpipeline1 arm64 1.5.7-1 [36.4 kB] Get: 10 http://deb.debian.org/debian bookworm/main arm64 man-db arm64 2.11.2-2 [1369 kB] Get: 11 http://deb.debian.org/debian bookworm/main arm64 m4 arm64 1.4.19-3 [276 kB] Get: 12 http://deb.debian.org/debian bookworm/main arm64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian bookworm/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian bookworm/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian bookworm/main arm64 autopoint all 0.21-12 [495 kB] Get: 16 http://deb.debian.org/debian bookworm/main arm64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 17 http://deb.debian.org/debian bookworm/main arm64 libtool all 2.4.7-5 [517 kB] Get: 18 http://deb.debian.org/debian bookworm/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian bookworm/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian bookworm/main arm64 libsub-override-perl all 0.09-4 [9304 B] Get: 21 http://deb.debian.org/debian bookworm/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 22 http://deb.debian.org/debian bookworm/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 23 http://deb.debian.org/debian bookworm/main arm64 libelf1 arm64 0.188-2.1 [173 kB] Get: 24 http://deb.debian.org/debian bookworm/main arm64 dwz arm64 0.15-1 [101 kB] Get: 25 http://deb.debian.org/debian bookworm/main arm64 libicu72 arm64 72.1-3 [9204 kB] Get: 26 http://deb.debian.org/debian bookworm/main arm64 libxml2 arm64 2.9.14+dfsg-1.2 [620 kB] Get: 27 http://deb.debian.org/debian bookworm/main arm64 gettext arm64 0.21-12 [1248 kB] Get: 28 http://deb.debian.org/debian bookworm/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian bookworm/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian bookworm/main arm64 debhelper all 13.11.4 [942 kB] Get: 31 http://deb.debian.org/debian bookworm/main arm64 zlib1g-dev arm64 1:1.2.13.dfsg-1 [913 kB] Get: 32 http://deb.debian.org/debian bookworm/main arm64 libbam-dev arm64 0.1.19+dfsg-6 [110 kB] Get: 33 http://deb.debian.org/debian bookworm/main arm64 libio-string-perl all 1.08-4 [12.1 kB] Get: 34 http://deb.debian.org/debian bookworm/main arm64 libdata-stag-perl all 0.14-3 [448 kB] Get: 35 http://deb.debian.org/debian bookworm/main arm64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get: 36 http://deb.debian.org/debian bookworm/main arm64 libmodule-build-perl all 0.423200-1 [253 kB] Get: 37 http://deb.debian.org/debian bookworm/main arm64 libperl-dev arm64 5.36.0-7 [957 kB] Fetched 23.6 MB in 1s (17.5 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 ... 19616 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.44-3_arm64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../02-libmagic1_1%3a5.44-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.44-3_arm64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-12_arm64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.22.4-10_arm64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.38.1-5+b1_arm64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.7-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.11.2-2_arm64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-3_arm64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... 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_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... 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 libsub-override-perl. Preparing to unpack .../19-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../21-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:arm64. Preparing to unpack .../22-libelf1_0.188-2.1_arm64.deb ... Unpacking libelf1:arm64 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1_arm64.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../24-libicu72_72.1-3_arm64.deb ... Unpacking libicu72:arm64 (72.1-3) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../25-libxml2_2.9.14+dfsg-1.2_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.2) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.21-12_arm64.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../27-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 .../28-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../29-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../30-zlib1g-dev_1%3a1.2.13.dfsg-1_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.2.13.dfsg-1) ... Selecting previously unselected package libbam-dev. Preparing to unpack .../31-libbam-dev_0.1.19+dfsg-6_arm64.deb ... Unpacking libbam-dev (0.1.19+dfsg-6) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../32-libio-string-perl_1.08-4_all.deb ... Unpacking libio-string-perl (1.08-4) ... Selecting previously unselected package libdata-stag-perl. Preparing to unpack .../33-libdata-stag-perl_0.14-3_all.deb ... Unpacking libdata-stag-perl (0.14-3) ... Selecting previously unselected package libbio-perl-perl. Preparing to unpack .../34-libbio-perl-perl_1.7.8-1_all.deb ... Unpacking libbio-perl-perl (1.7.8-1) ... Selecting previously unselected package libmodule-build-perl. Preparing to unpack .../35-libmodule-build-perl_0.423200-1_all.deb ... Adding 'diversion of /usr/bin/config_data to /usr/bin/config_data.diverted by libmodule-build-perl' Adding 'diversion of /usr/share/man/man1/config_data.1.gz to /usr/share/man/man1/config_data.diverted.1.gz by libmodule-build-perl' Unpacking libmodule-build-perl (0.423200-1) ... Selecting previously unselected package libperl-dev:arm64. Preparing to unpack .../36-libperl-dev_5.36.0-7_arm64.deb ... Unpacking libperl-dev:arm64 (5.36.0-7) ... Setting up libpipeline1:arm64 (1.5.7-1) ... Setting up libicu72:arm64 (72.1-3) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libmagic1:arm64 (1:5.44-3) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libperl-dev:arm64 (5.36.0-7) ... Setting up file (1:5.44-3) ... Setting up libmodule-build-perl (0.423200-1) ... Setting up libio-string-perl (1.08-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-12) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:arm64 (1:1.2.13.dfsg-1) ... Setting up libdata-stag-perl (0.14-3) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up libelf1:arm64 (0.188-2.1) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.2) ... 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 (1.13.1-1) ... Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbam-dev (0.1.19+dfsg-6) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.11.4) ... Processing triggers for libc-bin (2.36-9) ... 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/libbio-samtools-perl-1.43/ && 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 > ../libbio-samtools-perl_1.43-3_source.changes dpkg-buildpackage: info: source package libbio-samtools-perl dpkg-buildpackage: info: source version 1.43-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/libbio-samtools-perl-1.43' SAMTOOLS=/usr/include/samtools dh_auto_configure /usr/bin/perl Build.PL --installdirs vendor --config "optimize=-g -O2 -ffile-prefix-map=/build/libbio-samtools-perl-1.43=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" --config "ld=aarch64-linux-gnu-gcc -g -O2 -ffile-prefix-map=/build/libbio-samtools-perl-1.43=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro" Found /usr/include/samtools/bam.h and //lib/libbam.a. Created MYMETA.yml and MYMETA.json Creating new 'Build' script for 'Bio-SamTools' version '1.43' make[1]: Leaving directory '/build/libbio-samtools-perl-1.43' dh_auto_build /usr/bin/perl Build Building Bio-SamTools aarch64-linux-gnu-gcc -I/usr/include/samtools -Ic_bin -I/usr/lib/aarch64-linux-gnu/perl/5.36/CORE -fPIC -D_IOLIB=2 -D_FILE_OFFSET_BITS=64 -Wformat=0 -c -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -g -O2 -ffile-prefix-map=/build/libbio-samtools-perl-1.43=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -ffile-prefix-map=/build/libbio-samtools-perl-1.43=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o c_bin/bam2bedgraph.o c_bin/bam2bedgraph.c aarch64-linux-gnu-gcc -I/usr/include/samtools -Ic_bin -I/usr/lib/aarch64-linux-gnu/perl/5.36/CORE -DVERSION="1.43" -DXS_VERSION="1.43" -fPIC -D_IOLIB=2 -D_FILE_OFFSET_BITS=64 -Wformat=0 -c -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -g -O2 -ffile-prefix-map=/build/libbio-samtools-perl-1.43=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -ffile-prefix-map=/build/libbio-samtools-perl-1.43=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o lib/Bio/DB/Sam.o lib/Bio/DB/Sam.c lib/Bio/DB/Sam.xs: In function 'XS_Bio__DB__Bam_sort_core': lib/Bio/DB/Sam.xs:324:4: warning: implicit declaration of function 'bam_sort_core'; did you mean 'bam_format1_core'? [-Wimplicit-function-declaration] 324 | bam_sort_core(is_by_qname,filename,prefix,max_mem); | ^~~~~~~~~~~~~ | bam_format1_core lib/Bio/DB/Sam.xs: In function 'XS_Bio__DB__Bam__Header_view1': lib/Bio/DB/Sam.xs:916:8: warning: implicit declaration of function 'bam_view1' [-Wimplicit-function-declaration] 916 | bam_view1(bamh,alignment); | ^~~~~~~~~ ExtUtils::Mkbootstrap::Mkbootstrap('blib/arch/auto/Bio/DB/Sam/Sam.bs') aarch64-linux-gnu-gcc -g -O2 -ffile-prefix-map=/build/libbio-samtools-perl-1.43=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -shared -L/usr/local/lib -fstack-protector-strong -o blib/arch/auto/Bio/DB/Sam/Sam.so lib/Bio/DB/Sam.o c_bin/bam2bedgraph.o -L//lib -lbam -lpthread -lz make[1]: Entering directory '/build/libbio-samtools-perl-1.43/c_bin' gcc -g -Wall -O2 -fPIC -o bam2bedgraph bam2bedgraph.o -Wl,-z,relro -L//lib -lbam -lpthread -lm -lz make[1]: Leaving directory '/build/libbio-samtools-perl-1.43/c_bin' dh_auto_test /usr/bin/perl Build test --verbose 1 make[1]: Entering directory '/build/libbio-samtools-perl-1.43/c_bin' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/build/libbio-samtools-perl-1.43/c_bin' [fai_load] build FASTA index. [bam_parse_region] fail to determine the sequence name. t/01sam.t .. 1..268 # Running under perl version 5.036000 for linux # Current time local: Sun May 21 18:44:17 2023 # Current time GMT: Mon May 22 06:44:17 2023 # Using Test.pm version 1.31 ok 1 ok 2 ok 3 ok 4 ok 5 ok 6 ok 7 ok 8 ok 9 ok 10 ok 11 ok 12 ok 13 ok 14 ok 15 ok 16 ok 17 ok 18 ok 19 ok 20 ok 21 ok 22 ok 23 ok 24 ok 25 ok 26 ok 27 ok 28 ok 29 ok 30 ok 31 ok 32 ok 33 ok 34 ok 35 ok 36 ok 37 ok 38 ok 39 ok 40 ok 41 ok 42 ok 43 ok 44 ok 45 ok 46 ok 47 ok 48 ok 49 ok 50 ok 51 ok 52 ok 53 ok 54 ok 55 ok 56 ok 57 ok 58 ok 59 ok 60 ok 61 ok 62 ok 63 ok 64 ok 65 ok 66 ok 67 ok 68 ok 69 ok 70 ok 71 ok 72 ok 73 ok 74 ok 75 ok 76 ok 77 ok 78 ok 79 ok 80 ok 81 ok 82 ok 83 ok 84 ok 85 ok 86 ok 87 ok 88 ok 89 ok 90 ok 91 ok 92 ok 93 ok 94 ok 95 ok 96 ok 97 ok 98 ok 99 ok 100 ok 101 ok 102 ok 103 ok 104 ok 105 ok 106 ok 107 ok 108 ok 109 ok 110 ok 111 ok 112 ok 113 ok 114 ok 115 ok 116 ok 117 ok 118 ok 119 ok 120 ok 121 ok 122 ok 123 ok 124 ok 125 ok 126 ok 127 ok 128 ok 129 ok 130 ok 131 ok 132 ok 133 ok 134 ok 135 ok 136 ok 137 ok 138 ok 139 ok 140 ok 141 ok 142 ok 143 ok 144 ok 145 ok 146 ok 147 ok 148 ok 149 ok 150 ok 151 ok 152 ok 153 ok 154 ok 155 ok 156 ok 157 ok 158 ok 159 ok 160 ok 161 ok 162 ok 163 ok 164 ok 165 ok 166 ok 167 ok 168 ok 169 ok 170 ok 171 ok 172 ok 173 ok 174 ok 175 ok 176 ok 177 ok 178 ok 179 ok 180 ok 181 ok 182 ok 183 ok 184 ok 185 ok 186 ok 187 ok 188 ok 189 ok 190 ok 191 ok 192 ok 193 ok 194 ok 195 ok 196 ok 197 ok 198 ok 199 ok 200 ok 201 ok 202 ok 203 ok 204 ok 205 ok 206 ok 207 ok 208 ok 209 ok 210 ok 211 ok 212 ok 213 ok 214 ok 215 ok 216 ok 217 ok 218 ok 219 ok 220 ok 221 ok 222 ok 223 ok 224 ok 225 ok 226 ok 227 ok 228 ok 229 ok 230 ok 231 ok 232 ok 233 ok 234 ok 235 ok 236 ok 237 ok 238 ok 239 ok 240 ok 241 ok 242 ok 243 ok 244 ok 245 ok 246 ok 247 ok 248 ok 249 ok 250 ok 251 ok 252 ok 253 ok 254 ok 255 ok 256 ok 257 ok 258 ok 259 ok 260 ok 261 ok 262 ok 263 ok 264 ok 265 ok 266 ok 267 ok 268 ok All tests successful. Files=1, Tests=268, 3 wallclock secs ( 0.11 usr 0.01 sys + 2.22 cusr 0.19 csys = 2.53 CPU) Result: PASS create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/libbio-samtools-perl/ /usr/bin/perl Build install --destdir /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl --create_packlist 0 Building Bio-SamTools make[1]: Entering directory '/build/libbio-samtools-perl-1.43/c_bin' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/build/libbio-samtools-perl-1.43/c_bin' Files found in blib/arch: installing files in blib/lib into architecture dependent library tree Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/auto/Bio/DB/Sam/Sam.so Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/auto/Bio/DB/Sam/Sam.bs Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/bin/bam2bedgraph Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Sam.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Sam/Segment.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Sam/SamToGBrowse.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Sam/Constants.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Bam/Target.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Bam/ReadIterator.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Bam/Query.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Bam/PileupWrapper.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Bam/Pileup.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Bam/FetchIterator.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Bam/Alignment.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/lib/aarch64-linux-gnu/perl5/5.36/Bio/DB/Bam/AlignWrapper.pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Sam::Constants.3pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Sam.3pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::Target.3pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::Query.3pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::PileupWrapper.3pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::Pileup.3pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::Alignment.3pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::AlignWrapper.3pm Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/bin/genomeCoverageBed.pl Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/bin/chrom_sizes.pl Installing /build/libbio-samtools-perl-1.43/debian/libbio-samtools-perl/usr/bin/bamToGBrowse.pl dh_installdocs dh_installchangelogs dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libbio-samtools-perl-dbgsym' in '../libbio-samtools-perl-dbgsym_1.43-3_arm64.deb'. dpkg-deb: building package 'libbio-samtools-perl' in '../libbio-samtools-perl_1.43-3_arm64.deb'. dpkg-genbuildinfo --build=binary -O../libbio-samtools-perl_1.43-3_arm64.buildinfo dpkg-genchanges --build=binary -O../libbio-samtools-perl_1.43-3_arm64.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/25916 and its subdirectories I: Current time: Sun May 21 18:44:31 -12 2023 I: pbuilder-time-stamp: 1684737871 Mon May 22 06:44:33 UTC 2023 I: 1st build successful. Starting 2nd build on remote node codethink13-arm64.debian.net. Mon May 22 06:44:33 UTC 2023 I: Preparing to do remote build '2' on codethink13-arm64.debian.net. Mon May 22 06:47:44 UTC 2023 I: Deleting $TMPDIR on codethink13-arm64.debian.net. Mon May 22 06:47:45 UTC 2023 I: libbio-samtools-perl_1.43-3_arm64.changes: Format: 1.8 Date: Sun, 07 Jun 2020 09:23:40 +0200 Source: libbio-samtools-perl Binary: libbio-samtools-perl libbio-samtools-perl-dbgsym Architecture: arm64 Version: 1.43-3 Distribution: unstable Urgency: medium Maintainer: Debian Perl Group Changed-By: Andreas Tille Description: libbio-samtools-perl - Perl interface to SamTools library for DNA sequencing Changes: libbio-samtools-perl (1.43-3) unstable; urgency=medium . * Team upload . [ gregor herrmann ] * debian/control: update Build-Depends for cross builds. * debian/watch: use uscan version 4. . [ Andreas Tille ] * Remove deprecated fields from upstream metadata * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 13 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) Checksums-Sha1: 946f9699d86d1dc57e441f3d51e01a57a462da11 98776 libbio-samtools-perl-dbgsym_1.43-3_arm64.deb f1c5df981b90e551584464ecda248ea488cb253c 5460 libbio-samtools-perl_1.43-3_arm64.buildinfo 1cff13374d83ec31a3f1698228f6d90771ffb43b 178360 libbio-samtools-perl_1.43-3_arm64.deb Checksums-Sha256: e81ee88e51d6aa6d1c894d0a0bb3ae6667b97e3881c3b821b36a8c9b75eae175 98776 libbio-samtools-perl-dbgsym_1.43-3_arm64.deb 2a8ae4bab67c2219047611587808279f365722e72e14f066352d7593fdd7a366 5460 libbio-samtools-perl_1.43-3_arm64.buildinfo 3ed05df785d4b69795df2d7cb45ee3caa4c0cf44be7d1e4b508909003eabac6a 178360 libbio-samtools-perl_1.43-3_arm64.deb Files: 483e094292c728ffc9f92a3277d540ed 98776 debug optional libbio-samtools-perl-dbgsym_1.43-3_arm64.deb 743dc31ad4d98d60b675966f9aa0cc55 5460 perl optional libbio-samtools-perl_1.43-3_arm64.buildinfo e6a0fb1591c5b58baa464b7c0274c5f9 178360 perl optional libbio-samtools-perl_1.43-3_arm64.deb Mon May 22 06:47:54 UTC 2023 I: diffoscope 242 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.HWdfrDc8/libbio-samtools-perl_1.43-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.HWdfrDc8/libbio-samtools-perl_1.43-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.HWdfrDc8/libbio-samtools-perl_1.43-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.HWdfrDc8/b1/libbio-samtools-perl_1.43-3_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.HWdfrDc8/b2/libbio-samtools-perl_1.43-3_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.001s) 0.001s 1 call abc.DotChangesFile ## main (total time: 4.403s) 4.403s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.165s) 0.164s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Mon May 22 06:48:03 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Mon May 22 06:48:03 UTC 2023 I: libbio-samtools-perl from bookworm built successfully and reproducibly on arm64. Mon May 22 06:48:11 UTC 2023 I: Submitting .buildinfo files to external archives: Mon May 22 06:48:12 UTC 2023 I: Submitting 8.0K b1/libbio-samtools-perl_1.43-3_arm64.buildinfo.asc Mon May 22 06:48:12 UTC 2023 I: Submitting 8.0K b2/libbio-samtools-perl_1.43-3_arm64.buildinfo.asc Mon May 22 06:48:14 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon May 22 06:48:14 UTC 2023 I: Done submitting .buildinfo files. Mon May 22 06:48:14 UTC 2023 I: Removing signed libbio-samtools-perl_1.43-3_arm64.buildinfo.asc files: removed './b1/libbio-samtools-perl_1.43-3_arm64.buildinfo.asc' removed './b2/libbio-samtools-perl_1.43-3_arm64.buildinfo.asc'