Fri May 5 18:25:17 UTC 2023 I: starting to build grinder/bookworm/arm64 on jenkins on '2023-05-05 18:24' Fri May 5 18:25:17 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_6/5368/console.log Fri May 5 18:25:17 UTC 2023 I: Downloading source for bookworm/grinder=0.5.4-6 --2023-05-05 18:25:18-- http://cdn-fastly.deb.debian.org/debian/pool/main/g/grinder/grinder_0.5.4-6.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2103 (2.1K) [text/prs.lines.tag] Saving to: ‘grinder_0.5.4-6.dsc’ 0K .. 100% 44.6M=0s 2023-05-05 18:25:18 (44.6 MB/s) - ‘grinder_0.5.4-6.dsc’ saved [2103/2103] Fri May 5 18:25:18 UTC 2023 I: grinder_0.5.4-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: grinder Binary: grinder Architecture: all Version: 0.5.4-6 Maintainer: Debian Med Packaging Team Uploaders: Florent Angly , Andreas Tille Homepage: https://sourceforge.net/projects/biogrinder/ Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/grinder Vcs-Git: https://salsa.debian.org/med-team/grinder.git Testsuite: autopkgtest-pkg-perl Build-Depends: debhelper-compat (= 13) Build-Depends-Indep: libbio-perl-perl, libgetopt-euclid-perl, libmath-random-mt-perl, help2man Package-List: grinder deb science optional arch=all Checksums-Sha1: b2d1434bb080fe71075c30f1b0025b2496033c8f 162970 grinder_0.5.4.orig.tar.gz 4dfe81794c963458069b3b17e64ff5cade9dc867 5640 grinder_0.5.4-6.debian.tar.xz Checksums-Sha256: c34edcae59d1a461d354bae5e3798e98b42f6a31768585e598fe6bfa305c8fe4 162970 grinder_0.5.4.orig.tar.gz 29a9f4fa47d070085002e40730ffa4e4c84790634925968f304281972d26a8ab 5640 grinder_0.5.4-6.debian.tar.xz Files: 208730ac58a0db8feefd26297632d321 162970 grinder_0.5.4.orig.tar.gz 18200153ff9ae507d940b62e011e89a0 5640 grinder_0.5.4-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl/JIrIRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEqgw//UV9VHJwGhmCaN384X1ec8ZQ3CKFEjHZc BxqauWI2f9PyGHAj1kehTlIfzjAbG7Z7SZMCDlKA/gcsmC1Bz3K2tFf4CMNK5OjG PcfBSonTtjQ1Q+hYIxjMIzCc7LuuMIfH4qgX9WLzCWzkx/sS1eaO6wKAU0Hhj51h rZraJFsKuPj1hDlElOtbBDFdo1yl/rKUNzEBK+kzyn1NsgGytRyt7h3Uw8E0Ts55 A6+e48a5hE5+5xR0nhAdEbOYfbefnB37LvFn0O3HznNI905tNMHkwk8wCzUBzvrg kFU0DKtkCpk1+MG2khswFWOyHLMsC0Al9unDeDjlofLLfq7Hfyq5W0IcE8D1/Hdy lqeLZ0u3dQoOVspZ+XhlQilLReN2iKVdSXugXgeRk7sgc11LeGjMjkWLLLadw4IM r345Bz5WMR6B1A7uY/GpSDffeFJkTF9M4fzWR9HUk7Lk5ILysTpn4pyrY9AQbJhq goRKz/HgauopAmPzsZRk3i1LNPhlzcqGtD+Z8dMzBJEWJSUQmdmr6HrFu+qELXnQ hKykeOmLyi1VTlM005Farm7YlrrNAu21AjuJdJZwc0ADk1jko2kaoQWHZAuhVkuD VONJ+2UXrcc4sBablfabsZrABq3MNMXMmViOytwYe71SzUd/txu5oTeyHku8cXHF tL4mQCnrssA= =VTfm -----END PGP SIGNATURE----- Fri May 5 18:25:18 UTC 2023 I: Checking whether the package is not for us Fri May 5 18:25:18 UTC 2023 I: Starting 1st build on remote node codethink10-arm64.debian.net. Fri May 5 18:25:18 UTC 2023 I: Preparing to do remote build '1' on codethink10-arm64.debian.net. Fri May 5 18:26:14 UTC 2023 I: Deleting $TMPDIR on codethink10-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri May 5 06:25:21 -12 2023 I: pbuilder-time-stamp: 1683311121 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 [grinder_0.5.4-6.dsc] I: copying [./grinder_0.5.4.orig.tar.gz] I: copying [./grinder_0.5.4-6.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Dec 3 05:38:58 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 ./grinder_0.5.4-6.dsc: no acceptable signature found dpkg-source: info: extracting grinder in grinder-0.5.4 dpkg-source: info: unpacking grinder_0.5.4.orig.tar.gz dpkg-source: info: unpacking grinder_0.5.4-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying dot-in-inc.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/32161/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='32161' 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.CRyQTqIl/pbuilderrc_kXTw --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.CRyQTqIl/b1 --logfile b1/build.log grinder_0.5.4-6.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 codethink10-arm64 4.15.0-210-generic #221-Ubuntu SMP Tue Apr 18 08:32:48 UTC 2023 aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 4 22:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/32161/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), libbio-perl-perl, libgetopt-euclid-perl, libmath-random-mt-perl, help2man 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 libbio-perl-perl; however: Package libbio-perl-perl is not installed. pbuilder-satisfydepends-dummy depends on libgetopt-euclid-perl; however: Package libgetopt-euclid-perl is not installed. pbuilder-satisfydepends-dummy depends on libmath-random-mt-perl; however: Package libmath-random-mt-perl is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man 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} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libbio-perl-perl{a} libdata-stag-perl{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libgetopt-euclid-perl{a} libicu72{a} libio-string-perl{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libmath-random-mt-perl{a} libpipeline1{a} libpod-parser-perl{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{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 libpostscript-perl libset-scalar-perl libsoap-lite-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, 38 newly installed, 0 to remove and 0 not upgraded. Need to get 21.8 MB of archives. After unpacking 85.1 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main arm64 liblocale-gettext-perl arm64 1.07-5 [15.1 kB] Get: 2 http://deb.debian.org/debian bookworm/main arm64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 3 http://deb.debian.org/debian bookworm/main arm64 libmagic-mgc arm64 1:5.44-3 [305 kB] Get: 4 http://deb.debian.org/debian bookworm/main arm64 libmagic1 arm64 1:5.44-3 [98.5 kB] Get: 5 http://deb.debian.org/debian bookworm/main arm64 file arm64 1:5.44-3 [42.5 kB] Get: 6 http://deb.debian.org/debian bookworm/main arm64 gettext-base arm64 0.21-12 [159 kB] Get: 7 http://deb.debian.org/debian bookworm/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 8 http://deb.debian.org/debian bookworm/main arm64 groff-base arm64 1.22.4-10 [861 kB] Get: 9 http://deb.debian.org/debian bookworm/main arm64 bsdextrautils arm64 2.38.1-5+b1 [86.9 kB] Get: 10 http://deb.debian.org/debian bookworm/main arm64 libpipeline1 arm64 1.5.7-1 [36.4 kB] Get: 11 http://deb.debian.org/debian bookworm/main arm64 man-db arm64 2.11.2-2 [1369 kB] Get: 12 http://deb.debian.org/debian bookworm/main arm64 m4 arm64 1.4.19-3 [276 kB] Get: 13 http://deb.debian.org/debian bookworm/main arm64 autoconf all 2.71-3 [332 kB] Get: 14 http://deb.debian.org/debian bookworm/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian bookworm/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 16 http://deb.debian.org/debian bookworm/main arm64 autopoint all 0.21-12 [495 kB] Get: 17 http://deb.debian.org/debian bookworm/main arm64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 18 http://deb.debian.org/debian bookworm/main arm64 libtool all 2.4.7-5 [517 kB] Get: 19 http://deb.debian.org/debian bookworm/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian bookworm/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian bookworm/main arm64 libsub-override-perl all 0.09-4 [9304 B] Get: 22 http://deb.debian.org/debian bookworm/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 23 http://deb.debian.org/debian bookworm/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 24 http://deb.debian.org/debian bookworm/main arm64 libelf1 arm64 0.188-2.1 [173 kB] Get: 25 http://deb.debian.org/debian bookworm/main arm64 dwz arm64 0.15-1 [101 kB] Get: 26 http://deb.debian.org/debian bookworm/main arm64 libicu72 arm64 72.1-3 [9204 kB] Get: 27 http://deb.debian.org/debian bookworm/main arm64 libxml2 arm64 2.9.14+dfsg-1.2 [620 kB] Get: 28 http://deb.debian.org/debian bookworm/main arm64 gettext arm64 0.21-12 [1248 kB] Get: 29 http://deb.debian.org/debian bookworm/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian bookworm/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian bookworm/main arm64 debhelper all 13.11.4 [942 kB] Get: 32 http://deb.debian.org/debian bookworm/main arm64 help2man arm64 1.49.3 [198 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 libpod-parser-perl all 1.65-1 [96.3 kB] Get: 37 http://deb.debian.org/debian bookworm/main arm64 libgetopt-euclid-perl all 0.4.5-4 [45.6 kB] Get: 38 http://deb.debian.org/debian bookworm/main arm64 libmath-random-mt-perl arm64 1.17-2+b1 [13.6 kB] Fetched 21.8 MB in 1s (25.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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-liblocale-gettext-perl_1.07-5_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.44-3_arm64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../03-libmagic1_1%3a5.44-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.44-3_arm64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-12_arm64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../06-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.22.4-10_arm64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.38.1-5+b1_arm64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../09-libpipeline1_1.5.7-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.11.2-2_arm64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-3_arm64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-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 .../15-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-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 .../20-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 .../21-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 .../22-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 .../23-libelf1_0.188-2.1_arm64.deb ... Unpacking libelf1:arm64 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.15-1_arm64.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../25-libicu72_72.1-3_arm64.deb ... Unpacking libicu72:arm64 (72.1-3) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../26-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 .../27-gettext_0.21-12_arm64.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-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 .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package help2man. Preparing to unpack .../31-help2man_1.49.3_arm64.deb ... Unpacking help2man (1.49.3) ... 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 libpod-parser-perl. Preparing to unpack .../35-libpod-parser-perl_1.65-1_all.deb ... Adding 'diversion of /usr/bin/podselect to /usr/bin/podselect.bundled by libpod-parser-perl' Adding 'diversion of /usr/share/man/man1/podselect.1.gz to /usr/share/man/man1/podselect.bundled.1.gz by libpod-parser-perl' Unpacking libpod-parser-perl (1.65-1) ... Selecting previously unselected package libgetopt-euclid-perl. Preparing to unpack .../36-libgetopt-euclid-perl_0.4.5-4_all.deb ... Unpacking libgetopt-euclid-perl (0.4.5-4) ... Selecting previously unselected package libmath-random-mt-perl. Preparing to unpack .../37-libmath-random-mt-perl_1.17-2+b1_arm64.deb ... Unpacking libmath-random-mt-perl (1.17-2+b1) ... 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 file (1:5.44-3) ... Setting up libmath-random-mt-perl (1.17-2+b1) ... Setting up libio-string-perl (1.08-4) ... Setting up autotools-dev (20220109.1) ... Setting up libpod-parser-perl (1.65-1) ... Setting up autopoint (0.21-12) ... Setting up autoconf (2.71-3) ... Setting up libgetopt-euclid-perl (0.4.5-4) ... 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 liblocale-gettext-perl (1.07-5) ... 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 help2man (1.49.3) ... Setting up dh-autoreconf (20) ... 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/grinder-0.5.4/ && 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 > ../grinder_0.5.4-6_source.changes dpkg-buildpackage: info: source package grinder dpkg-buildpackage: info: source version 0.5.4-6 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 debian/rules override_dh_auto_clean make[1]: Entering directory '/build/grinder-0.5.4' dh_auto_clean rm -rf debian/man if [ -d _disposal ] ; then \ if [ -e _disposal/MYMETA.yml ] ; then mv _disposal/MYMETA.yml . ; fi ; \ for pm in `cd _disposal ; find Bio -type f ; cd ..` ; do \ mv _disposal/${pm} lib/${pm} ; \ done ; \ fi rm -rf _disposal make[1]: Leaving directory '/build/grinder-0.5.4' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/grinder-0.5.4' # MYMETA.yml will be changed and not reverted in clean target - use the chance to conserve it here mkdir _disposal cp -a MYMETA.yml _disposal dh_auto_configure /usr/bin/perl Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -ffile-prefix-map=/build/grinder-0.5.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "LD=aarch64-linux-gnu-gcc -g -O2 -ffile-prefix-map=/build/grinder-0.5.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro" Warning: prerequisite Test::Warn 0 not found. *** Module::AutoInstall version 1.16 *** Checking for Perl dependencies... [Core Features] - Test::More ...loaded. (1.302190) - Test::Warn ...missing. - Bio::Root::Version ...loaded. (1.7.8 >= 1.006923) - Bio::DB::Fasta ...loaded. (1.7.8) - Bio::Location::Split ...loaded. (1.7.8) - Bio::PrimarySeq ...loaded. (1.7.8) - Bio::Root::Root ...loaded. (1.7.8) - Bio::SeqIO ...loaded. (1.7.8) - Bio::SeqFeature::SubSeq ...loaded. (1.7.8) - Bio::Seq::SimulatedRead ...loaded. (1.7.8) - Bio::Tools::AmpliconSearch ...loaded. (1.7.8) - Getopt::Euclid ...loaded. (0.4.5 >= 0.4.4) - List::Util ...loaded. (1.62) - Math::Random::MT ...loaded. (1.17 >= 1.16) - version ...loaded. (0.9929 >= 0.77) *** Module::AutoInstall configuration finished. Checking if your kit is complete... Looks good Invalid LICENSE value 'gpl3' ignored Generating a Unix-style Makefile Writing Makefile for Grinder Writing MYMETA.yml and MYMETA.json *** Building doc... make[1]: Leaving directory '/build/grinder-0.5.4' debian/rules override_dh_auto_build make[1]: Entering directory '/build/grinder-0.5.4' mkdir -p debian/man echo "$MORE" > debian/man/more.1 PERL5LIB=lib help2man --no-discard-stderr --name 'Versatile omics shotgun and amplicon sequencing read simulator' --section 1 --version-string 0.5.4 --no-info --include debian/man/more.1 --output debian/man/grinder.1 bin/grinder help2man --no-discard-stderr --name 'Calculate the average genome size in Grinder libraries' --section 1 --version-string 0.5.4 --no-info --include debian/man/more.1 --output debian/man/average_genome_size.1 utils/average_genome_size help2man --no-discard-stderr --name 'Reverses the orientation of each paired\-end FASTA sequence' --section 1 --version-string 0.5.4 --no-info --include debian/man/more.1 --output debian/man/change_paired_read_orientation.1 utils/change_paired_read_orientation rm debian/man/more.1 dh_auto_build make -j8 make[2]: Entering directory '/build/grinder-0.5.4' cp lib/Grinder.pm blib/lib/Grinder.pm cp lib/Grinder/Database.pm blib/lib/Grinder/Database.pm cp lib/Grinder/KmerCollection.pm blib/lib/Grinder/KmerCollection.pm cp utils/average_genome_size blib/script/average_genome_size cp utils/change_paired_read_orientation blib/script/change_paired_read_orientation "/usr/bin/perl" "-Iinc" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/average_genome_size "/usr/bin/perl" "-Iinc" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/change_paired_read_orientation cp bin/grinder blib/script/grinder "/usr/bin/perl" "-Iinc" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/grinder Manifying 2 pod documents Manifying 2 pod documents make[2]: Leaving directory '/build/grinder-0.5.4' make[1]: Leaving directory '/build/grinder-0.5.4' debian/rules override_dh_auto_test make[1]: Entering directory '/build/grinder-0.5.4' /usr/bin/make testdb TEST_FILE=t/00-load.t TESTDB_SW='' make[2]: Entering directory '/build/grinder-0.5.4' PERL_DL_NONLAZY=1 "/usr/bin/perl" "-Iinc" "-Iblib/lib" "-Iblib/arch" t/00-load.t ok 1 - use Grinder; ok 2 - use Grinder::KmerCollection; ok 3 - use Grinder::Database; ok 4 - use t::TestUtils; # Testing Grinder 0.5.4, Perl 5.036000, /usr/bin/perl 1..4 make[2]: Leaving directory '/build/grinder-0.5.4' make[1]: Leaving directory '/build/grinder-0.5.4' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/grinder/ make -j8 install DESTDIR=/build/grinder-0.5.4/debian/grinder AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/grinder-0.5.4' Manifying 2 pod documents Manifying 2 pod documents Installing /build/grinder-0.5.4/debian/grinder/usr/share/perl5/Grinder.pm Installing /build/grinder-0.5.4/debian/grinder/usr/share/perl5/Grinder/KmerCollection.pm Installing /build/grinder-0.5.4/debian/grinder/usr/share/perl5/Grinder/Database.pm Installing /build/grinder-0.5.4/debian/grinder/usr/share/man/man1/change_paired_read_orientation.1p Installing /build/grinder-0.5.4/debian/grinder/usr/share/man/man1/average_genome_size.1p Installing /build/grinder-0.5.4/debian/grinder/usr/share/man/man3/Grinder::KmerCollection.3pm Installing /build/grinder-0.5.4/debian/grinder/usr/share/man/man3/Grinder.3pm Installing /build/grinder-0.5.4/debian/grinder/usr/bin/change_paired_read_orientation Installing /build/grinder-0.5.4/debian/grinder/usr/bin/average_genome_size Installing /build/grinder-0.5.4/debian/grinder/usr/bin/grinder make[1]: Leaving directory '/build/grinder-0.5.4' debian/rules override_dh_install make[1]: Entering directory '/build/grinder-0.5.4' dh_install for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done make[1]: Leaving directory '/build/grinder-0.5.4' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'grinder' in '../grinder_0.5.4-6_all.deb'. dpkg-genbuildinfo --build=binary -O../grinder_0.5.4-6_arm64.buildinfo dpkg-genchanges --build=binary -O../grinder_0.5.4-6_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/32161 and its subdirectories I: Current time: Fri May 5 06:26:13 -12 2023 I: pbuilder-time-stamp: 1683311173 Fri May 5 18:26:15 UTC 2023 I: 1st build successful. Starting 2nd build on remote node codethink11-arm64.debian.net. Fri May 5 18:26:15 UTC 2023 I: Preparing to do remote build '2' on codethink11-arm64.debian.net. Fri May 5 18:27:10 UTC 2023 I: Deleting $TMPDIR on codethink11-arm64.debian.net. Fri May 5 18:27:11 UTC 2023 I: grinder_0.5.4-6_arm64.changes: Format: 1.8 Date: Thu, 03 Dec 2020 17:41:21 +0100 Source: grinder Binary: grinder Architecture: all Version: 0.5.4-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: grinder - Versatile omics shotgun and amplicon sequencing read simulator Changes: grinder (0.5.4-6) unstable; urgency=medium . * Standards-Version: 4.5.1 (routine-update) * debhelper-compat 13 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Set upstream metadata fields: Bug-Database, Repository. * watch file standard 4 (routine-update) Checksums-Sha1: 6c16ae8da039d9b0f6008f2be98cc89afd54bafa 84476 grinder_0.5.4-6_all.deb 09155471cd60c93e8b4bc65ac813a0153a704d69 5088 grinder_0.5.4-6_arm64.buildinfo Checksums-Sha256: c32b9e86ab5de0929398370823b90cddbffb63f64fc311cb5d94ae389ae63583 84476 grinder_0.5.4-6_all.deb 09b371b1e8952a6ac68d39948a99d220bec0438a643995ec1f3885f596019b64 5088 grinder_0.5.4-6_arm64.buildinfo Files: 2d37ae98d106bbe7b0edddf54d0570b3 84476 science optional grinder_0.5.4-6_all.deb b8fa5a31e6e4aeacddc71a7e5f4a3719 5088 science optional grinder_0.5.4-6_arm64.buildinfo Fri May 5 18:27:19 UTC 2023 I: diffoscope 241 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.CRyQTqIl/grinder_0.5.4-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.CRyQTqIl/grinder_0.5.4-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.CRyQTqIl/grinder_0.5.4-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.CRyQTqIl/b1/grinder_0.5.4-6_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.CRyQTqIl/b2/grinder_0.5.4-6_arm64.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: 8.013s) 8.013s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.960s) 0.959s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.001s) 0.001s 1 call specialize Fri May 5 18:31:01 UTC 2023 I: diffoscope 241 found no differences in the changes files, and a .buildinfo file also exists. Fri May 5 18:31:01 UTC 2023 I: grinder from bookworm built successfully and reproducibly on arm64. Fri May 5 18:31:09 UTC 2023 I: Submitting .buildinfo files to external archives: Fri May 5 18:31:09 UTC 2023 I: Submitting 8.0K b1/grinder_0.5.4-6_arm64.buildinfo.asc Fri May 5 18:31:13 UTC 2023 I: Submitting 8.0K b2/grinder_0.5.4-6_arm64.buildinfo.asc Fri May 5 18:31:19 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri May 5 18:31:19 UTC 2023 I: Done submitting .buildinfo files. Fri May 5 18:31:19 UTC 2023 I: Removing signed grinder_0.5.4-6_arm64.buildinfo.asc files: removed './b1/grinder_0.5.4-6_arm64.buildinfo.asc' removed './b2/grinder_0.5.4-6_arm64.buildinfo.asc'