Sat Oct 16 17:43:25 UTC 2021 I: starting to build libbio-tools-run-alignment-tcoffee-perl/bullseye/amd64 on jenkins on '2021-10-16 17:43' Sat Oct 16 17:43:25 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_7/80644/console.log Sat Oct 16 17:43:25 UTC 2021 I: Downloading source for bullseye/libbio-tools-run-alignment-tcoffee-perl=1.7.4-2 --2021-10-16 17:43:25-- http://cdn-fastly.deb.debian.org/debian/pool/main/libb/libbio-tools-run-alignment-tcoffee-perl/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2808 (2.7K) Saving to: ‘libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.dsc’ 0K .. 100% 223M=0s 2021-10-16 17:43:25 (223 MB/s) - ‘libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.dsc’ saved [2808/2808] Sat Oct 16 17:43:25 UTC 2021 I: libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libbio-tools-run-alignment-tcoffee-perl Binary: libbio-tools-run-alignment-tcoffee-perl Architecture: all Version: 1.7.4-2 Maintainer: Debian Perl Group Uploaders: David Miguel Susano Pinto Homepage: https://metacpan.org/release/Bio-Tools-Run-Alignment-TCoffee Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/perl-team/modules/packages/libbio-tools-run-alignment-tcoffee-perl Vcs-Git: https://salsa.debian.org/perl-team/modules/packages/libbio-tools-run-alignment-tcoffee-perl.git Testsuite: autopkgtest-pkg-perl Build-Depends: debhelper-compat (= 13) Build-Depends-Indep: clustalw , libbio-perl-perl , libbio-perl-run-perl , libdevel-checkbin-perl, libtest-exception-perl , perl, t-coffee Package-List: libbio-tools-run-alignment-tcoffee-perl deb science optional arch=all Checksums-Sha1: dda94eb00899c2865e61c7feb6205971c317a26a 29373 libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz 257b63ab6d60818afc869e64cdc00f1211037197 2456 libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.debian.tar.xz Checksums-Sha256: 3d8b41b9701933249cde26dd0e8a919958b218f1f585183a7a225e6a254d6523 29373 libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz 03344fd0913a1239dea23b2f75fd4dff64998d696ae54db89daea6af9473778b 2456 libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.debian.tar.xz Files: 49c2a232f3c64b8a4add2560f1c0322b 29373 libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz 04bb996f787e250eb3a163ab361fc339 2456 libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.debian.tar.xz Dgit: 5c7361612dd0be892d1c426a155a0ca91bffec08 debian archive/debian/1.7.4-2 https://git.dgit.debian.org/libbio-tools-run-alignment-tcoffee-perl -----BEGIN PGP SIGNATURE----- iQKTBAEBCgB9FiEE0eExbpOnYKgQTYX6uzpoAYZJqgYFAl+UjttfFIAAAAAALgAo aXNzdWVyLWZwckBub3RhdGlvbnMub3BlbnBncC5maWZ0aGhvcnNlbWFuLm5ldEQx RTEzMTZFOTNBNzYwQTgxMDREODVGQUJCM0E2ODAxODY0OUFBMDYACgkQuzpoAYZJ qgZsHQ//eLltdArXepIZsIBtkgSPThDwGw4MfoE5lgfUS0sgBnERJne102FYwOzz 2ubk3a8Zmvu17Ax0R/ai146Fpty1VXIuYzM+1XSxmuZ/I0o/CSDekNoFRi0MNGSB H3O4WiK0VNmeoo7oOXzRvSpRaXXuc+4/cnQr+WdJWDawJCI2cDy8qpJJeockiztr CGoEtGk8BlbjHRG+qbcj59Hi5OpNMhsf5cAEjWLFXTQDKR8gqZWUaSYMD1/ciV3u sstys8HXTJiZ+ZGETXUJb+Hj9vAJlqcN0TZvlPukpbtrQ6zptPAXqAENLEroCqCn /10CJwond+zW9DRUcc7YgVXCuaTW900m5cQSZL50/Xzk5QIUQrY6k+XjwEQ88mvc 3SLuuudLOsjFTyX3XDWoRzQraVuhP0PmP/YmtoxTMydJ7ITMwIAZ+DYlKSBjrSMR oLruxZLKIPJLiKqrf0N03XOQDXSj2Rz+/qITnrU2ECn17rq6DV0Ar6nWB+pGd4uO hvgN8Ptq+/SJtG1KWbdMx+PTM6XModRSEc4ObgVpHOj++ddaThbk0xjzOs5AX74m 4eZXlg2Z6QYOjfjqdcOEbOpl7PD8KcvFb09J17TZ92eUiabLiO4yatWWIiEGDKR3 6+AEfE3/ElOgXRURCuguoDxeKDVq4VM+pbqjxA0w+jL75xrfVWc= =+Wmx -----END PGP SIGNATURE----- Sat Oct 16 17:43:25 UTC 2021 I: Checking whether the package is not for us Sat Oct 16 17:43:25 UTC 2021 I: Starting 1st build on remote node ionos11-amd64.debian.net. Sat Oct 16 17:43:25 UTC 2021 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Sat Oct 16 17:45:53 UTC 2021 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Oct 16 05:43:27 -12 2021 I: pbuilder-time-stamp: 1634406207 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration 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-tools-run-alignment-tcoffee-perl_1.7.4-2.dsc] I: copying [./libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz] I: copying [./libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.YZcsX1ev/trustedkeys.kbx': General error gpgv: Signature made Sat Oct 24 08:30:19 2020 -12 gpgv: using RSA key D1E1316E93A760A8104D85FABB3A68018649AA06 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.dsc dpkg-source: info: extracting libbio-tools-run-alignment-tcoffee-perl in libbio-tools-run-alignment-tcoffee-perl-1.7.4 dpkg-source: info: unpacking libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz dpkg-source: info: unpacking libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying doc-typos.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2418364/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=15' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='a263310e310342c589df04b36c417354' 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='2418364' 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/tmp.rmuKukkHGl/pbuilderrc_voMw --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.rmuKukkHGl/b1 --logfile b1/build.log libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos11-amd64 5.10.0-9-amd64 #1 SMP Debian 5.10.70-1 (2021-09-30) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 4 08:25 bash -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash -rwxr-xr-x 1 root root 113664 Sep 23 2020 date -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd -rwxr-xr-x 1 root root 93936 Sep 23 2020 df -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir -rwxr-xr-x 1 root root 84440 Jul 28 07:09 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 28 07:09 findmnt -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 2 2021 gzip -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln -rwxr-xr-x 1 root root 56952 Feb 7 2020 login -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls -rwxr-xr-x 1 root root 149736 Jul 28 07:09 lsblk -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 59632 Jul 28 07:09 more -rwsr-xr-x 1 root root 55528 Jul 28 07:09 mount -rwxr-xr-x 1 root root 18664 Jul 28 07:09 mountpoint -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Oct 6 21:25 sh -> dash -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty -rwsr-xr-x 1 root root 71912 Jul 28 07:09 su -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync -rwxr-xr-x 1 root root 531928 Feb 16 2021 tar -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch -rwxr-xr-x 1 root root 39680 Sep 23 2020 true -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jul 28 07:09 umount -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 28 07:09 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/2418364/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), clustalw, libbio-perl-perl, libbio-perl-run-perl, libdevel-checkbin-perl, libtest-exception-perl, perl, t-coffee dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 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 clustalw; however: Package clustalw is not installed. pbuilder-satisfydepends-dummy depends on libbio-perl-perl; however: Package libbio-perl-perl is not installed. pbuilder-satisfydepends-dummy depends on libbio-perl-run-perl; however: Package libbio-perl-run-perl is not installed. pbuilder-satisfydepends-dummy depends on libdevel-checkbin-perl; however: Package libdevel-checkbin-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-exception-perl; however: Package libtest-exception-perl is not installed. pbuilder-satisfydepends-dummy depends on t-coffee; however: Package t-coffee 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} clustalw{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} libbio-perl-perl{a} libbio-perl-run-perl{a} libdata-stag-perl{a} libdebhelper-perl{a} libdevel-checkbin-perl{a} libelf1{a} libfile-sort-perl{a} libfile-stripnondeterminism-perl{a} libicu67{a} libio-pty-perl{a} libio-string-perl{a} libipc-run-perl{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsigsegv2{a} libsub-override-perl{a} libsub-uplevel-perl{a} libtest-exception-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} t-coffee{a} The following packages are RECOMMENDED but will NOT be installed: amap-align clustalo curl dialign-tx fsa kalign libace-perl libalgorithm-diff-perl libalgorithm-munkres-perl libarchive-cpio-perl libarray-compare-perl libbio-asn1-entrezgene-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 mafft muscle mustang ncbi-blast+ perl-tk poa prank probcons proda tm-align wget 0 packages upgraded, 43 newly installed, 0 to remove and 0 not upgraded. Need to get 23.5 MB of archives. After unpacking 83.2 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 clustalw amd64 2.1+lgpl-7 [282 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libio-string-perl all 1.08-3.1 [11.8 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libdata-stag-perl all 0.14-2 [448 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 libbio-perl-perl all 1.7.7-2 [2607 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libio-pty-perl amd64 1:1.15-2 [37.0 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 libipc-run-perl all 20200505.0-1 [102 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libfile-sort-perl all 1.01-2 [21.2 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 libbio-perl-run-perl all 1.7.3-6 [606 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 libdevel-checkbin-perl all 0.04-1.1 [4920 B] Get: 41 http://deb.debian.org/debian bullseye/main amd64 libsub-uplevel-perl all 0.2800-1.1 [16.5 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 libtest-exception-perl all 0.43-1 [18.7 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 t-coffee amd64 13.41.0.28bdc39+dfsg-4 [1003 kB] Fetched 23.5 MB in 1s (23.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19655 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_amd64.deb ... 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Setting up libdebhelper-perl (13.3.4) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up t-coffee (13.41.0.28bdc39+dfsg-4) ... Setting up libio-string-perl (1.08-3.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up libipc-run-perl (20200505.0-1) ... Setting up libdata-stag-perl (0.14-2) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up clustalw (2.1+lgpl-7) ... Setting up libsub-uplevel-perl (0.2800-1.1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libbio-perl-perl (1.7.7-2) ... Setting up libelf1:amd64 (0.183-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7) ... Setting up libfile-sort-perl (1.01-2) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up libbio-perl-run-perl (1.7.3-6) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up m4 (1.4.18-5) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libtest-exception-perl (0.43-1) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... 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-tools-run-alignment-tcoffee-perl-1.7.4/ && 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 > ../libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_source.changes dpkg-buildpackage: info: source package libbio-tools-run-alignment-tcoffee-perl dpkg-buildpackage: info: source version 1.7.4-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by gregor herrmann dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure perl Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -fdebug-prefix-map=/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "LD=x86_64-linux-gnu-gcc -g -O2 -fdebug-prefix-map=/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro" Locating bin:t_coffee... found at /usr/bin/t_coffee. Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::Tools::Run::Alignment::TCoffee Writing MYMETA.yml and MYMETA.json dh_auto_build make -j15 make[1]: Entering directory '/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4' cp lib/Bio/Tools/Run/Alignment/TCoffee.pm blib/lib/Bio/Tools/Run/Alignment/TCoffee.pm Manifying 1 pod document make[1]: Leaving directory '/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4' dh_auto_test make -j15 test TEST_VERBOSE=1 make[1]: Entering directory '/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4' PERL_DL_NONLAZY=1 "/usr/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(1, 'blib/lib', 'blib/arch')" t/*.t t/00-compile.t ........... 1..1 ok 1 - Bio/Tools/Run/Alignment/TCoffee.pm loaded ok ok t/author-eol.t ........... skipped: these tests are for testing by the author t/author-mojibake.t ...... skipped: these tests are for testing by the author t/author-no-tabs.t ....... skipped: these tests are for testing by the author t/author-pod-coverage.t .. skipped: these tests are for testing by the author t/author-pod-syntax.t .... skipped: these tests are for testing by the author ! 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[Final Evaluation][TOT= 397][100 %] t/TCoffee.t .............. ok 1 - An object of class 'Bio::Tools::Run::Alignment::TCoffee' isa 'Bio::Tools::Run::Alignment::TCoffee' ok 2 - set factory parameter ok 3 - get factory parameter ok 4 - Code tested only on t_coffee versions > 1.22 #Single Thread ok 5 ok 6 #Single Thread ok 7 #Single Thread #Single Thread #Single Thread #Single Thread #Single Thread ok 8 ok 9 - no T-COFFEE errors ok 10 ok 11 ok 12 #Single Thread #Single Thread ok 13 ok 14 ok 15 #Single Thread #Single Thread ok 16 ok 17 - expect 21 >= val >= 23 ok 18 - expect 47 or 48 #Single Thread ok 19 - simple generic run ok 20 #Single Thread #Single Thread #Single Thread #Single Thread #Single Thread ok 21 ok 22 - no T-COFFEE errors ok 23 ok 24 - expect 13 or 14 ok 25 - expect 41 or 42 1..25 rmdir /tmp/KCnHfS5j6b ok All tests successful. Files=7, Tests=26, 56 wallclock secs ( 0.07 usr 0.01 sys + 9.77 cusr 14.99 csys = 24.84 CPU) Result: PASS make[1]: Leaving directory '/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j15 install DESTDIR=/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4/debian/libbio-tools-run-alignment-tcoffee-perl AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4' Manifying 1 pod document Installing /build/libbio-tools-run-alignment-tcoffee-perl-1.7.4/debian/libbio-tools-run-alignment-tcoffee-perl/usr/share/perl5/Bio/Tools/Run/Alignment/TCoffee.pm Installing /build/libbio-tools-run-alignment-tcoffee-perl-1.7.4/debian/libbio-tools-run-alignment-tcoffee-perl/usr/share/man/man3/Bio::Tools::Run::Alignment::TCoffee.3pm make[1]: Leaving directory '/build/libbio-tools-run-alignment-tcoffee-perl-1.7.4' dh_installdocs dh_installchangelogs dh_installman dh_lintian 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 'libbio-tools-run-alignment-tcoffee-perl' in '../libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_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/2418364 and its subdirectories I: Current time: Sat Oct 16 05:45:52 -12 2021 I: pbuilder-time-stamp: 1634406352 Sat Oct 16 17:45:53 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Sat Oct 16 17:45:53 UTC 2021 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Sat Oct 16 17:47:12 UTC 2021 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Sat Oct 16 17:47:13 UTC 2021 I: libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.changes: Format: 1.8 Date: Sat, 24 Oct 2020 22:26:05 +0200 Source: libbio-tools-run-alignment-tcoffee-perl Binary: libbio-tools-run-alignment-tcoffee-perl Architecture: all Version: 1.7.4-2 Distribution: unstable Urgency: medium Maintainer: Debian Perl Group Changed-By: gregor herrmann Description: libbio-tools-run-alignment-tcoffee-perl - Bioperl interface to T-Coffee Changes: libbio-tools-run-alignment-tcoffee-perl (1.7.4-2) unstable; urgency=medium . * Team upload. * Source-only upload. * debian/*: replace ADTTMP with AUTOPKGTEST_TMP. * debian/watch: use uscan version 4. * Declare compliance with Debian Policy 4.5.0. * Set Rules-Requires-Root: no. * Annotate test-only build dependencies with . * Bump debhelper-compat to 13. * debian/rules: remove manual handling of HOME. debhelper 13 does this for us. Checksums-Sha1: 122d5fd6b7efaf3c00ff83bdf762a903557aa607 23204 libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_all.deb 1954691438641914d7e9a7e87deb3e91fd03e173 5292 libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.buildinfo Checksums-Sha256: 934990fd8eb5ec7dc06fb0a8635ac7cc666925872c052a9bf10ca9df609d6e75 23204 libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_all.deb 3c60339eb3ef3699bfcd6b6050eeaaa7759f6b84679c380ddf51e749e1120763 5292 libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.buildinfo Files: 42c199e054b8a15711cf0390b10b90a7 23204 science optional libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_all.deb 24b3b5a9bd4cf5548bdb44dc8c3fc587 5292 science optional libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.buildinfo Sat Oct 16 17:47:15 UTC 2021 I: will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.rmuKukkHGl/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.rmuKukkHGl/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.rmuKukkHGl/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.rmuKukkHGl/b1/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.rmuKukkHGl/b2/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_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: 0.606s) 0.606s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.021s) 0.021s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sat Oct 16 17:49:29 UTC 2021 I: found no differences in the changes files, and a .buildinfo file also exists. Sat Oct 16 17:49:29 UTC 2021 I: libbio-tools-run-alignment-tcoffee-perl from bullseye built successfully and reproducibly on amd64. Sat Oct 16 17:49:34 UTC 2021 I: Submitting .buildinfo files to external archives: Sat Oct 16 17:49:34 UTC 2021 I: Submitting 8.0K b1/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.buildinfo.asc Sat Oct 16 17:49:35 UTC 2021 I: Submitting 8.0K b2/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.buildinfo.asc Sat Oct 16 17:49:36 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Oct 16 17:49:36 UTC 2021 I: Done submitting .buildinfo files. Sat Oct 16 17:49:36 UTC 2021 I: Removing signed libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.buildinfo.asc files: removed './b1/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.buildinfo.asc' removed './b2/libbio-tools-run-alignment-tcoffee-perl_1.7.4-2_amd64.buildinfo.asc'