Fri May 24 02:52:29 UTC 2024 I: starting to build soapdenovo/unstable/amd64 on jenkins on '2024-05-24 02:52' Fri May 24 02:52:29 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_35/12085/console.log Fri May 24 02:52:29 UTC 2024 I: Downloading source for unstable/soapdenovo=1.05-6 --2024-05-24 02:52:30-- http://deb.debian.org/debian/pool/main/s/soapdenovo/soapdenovo_1.05-6.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2050 (2.0K) [text/prs.lines.tag] Saving to: ‘soapdenovo_1.05-6.dsc’ 0K .. 100% 242M=0s 2024-05-24 02:52:30 (242 MB/s) - ‘soapdenovo_1.05-6.dsc’ saved [2050/2050] Fri May 24 02:52:30 UTC 2024 I: soapdenovo_1.05-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: soapdenovo Binary: soapdenovo Architecture: any-amd64 any-ppc64 any-ia64 Version: 1.05-6 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou Homepage: http://soap.genomics.org.cn/soapdenovo.html Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/soapdenovo Vcs-Git: https://salsa.debian.org/med-team/soapdenovo.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), rename Package-List: soapdenovo deb science optional arch=any-amd64,any-ppc64,any-ia64 Checksums-Sha1: e7d8fc337de43cc6b96b2b24acbe5454cf0eadfe 377640 soapdenovo_1.05.orig.tar.gz 211390b0b1629a191a3a6a18c2b7ee3e9ec1e552 607956 soapdenovo_1.05-6.debian.tar.xz Checksums-Sha256: bb2fcdc0cb2290b8d63f7afdffddf693679dbd8d6d3dd2db136a65f299794cbc 377640 soapdenovo_1.05.orig.tar.gz 905962c0119a78909f70b70d6c449b809dd7f7f4bba96faf193d566e0589e819 607956 soapdenovo_1.05-6.debian.tar.xz Files: f6d16bce2b8233b6fd93c6009dcc40b3 377640 soapdenovo_1.05.orig.tar.gz a5c7ff50d9d4f42448f251cff987377a 607956 soapdenovo_1.05-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl+cjZ0RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtENwA/9ERJ9sDux/C6IG6Mfndw3uEkbWCPKW31B khoPBO+UeS3DmAPgVY35UB6vAmTdDnnsI6C+EQZv4xO5fP4uZNzi7suEnm+HTkIA Z/8aJN+mz8xY3UX1AXhY5sizk9fNTBzMQpzfV6Q1HChzWmDCJCq46mPlI7v0g1ny LEBVUK+Opjal03jBlDda7dCmsyKGQ54uzaKcxWsV7pIqGsCbaX7GFLjQGWY7kJzB rX0d8jNSFAECx+38d63Ea1eeOeEatEAKKMQujqokU8GlgVjMTqr8yiHk45tTMdAv gYF1uOnR8YPfIhq+u+t3TZqmnCW1uvmo1Nl+cju/Iyg8Z3os/EcNHjTMlkvj7JBS DFHUffM7wkBbrkQvXmmcvPYIDCGDHIUqHimHSJrs8E23C9TqCRXlEnwT//FrRwoF bFUHg2gnbVNLP55144l9o/pm7pmYkm0eKYv7hsSfXdDnmth8Bu8nZqZ/aUQbg5uc l6qbwiF4unAgstwSMguaN2bWhH7q1gFgrxVplQCIZSSnIbPlz44fcyHWpPIcKftI 8HP+kz2iQBoAntiGNdFi3/lQyZw6SilXidQyBcQulJzzittlvYFJSkyRXEo4LBZg Jxgip288Qs6b8X15fuSokmv7+b87AOHBqAV48VyglzZBY8sh53xOFO0TIjo/qkGo A4DFwRe1oq0= =5DQN -----END PGP SIGNATURE----- Fri May 24 02:52:30 UTC 2024 I: Checking whether the package is not for us Fri May 24 02:52:30 UTC 2024 I: Starting 1st build on remote node infom01-amd64.debian.net. Fri May 24 02:52:30 UTC 2024 I: Preparing to do remote build '1' on infom01-amd64.debian.net. Fri May 24 02:54:23 UTC 2024 I: Deleting $TMPDIR on infom01-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu May 23 14:52:32 -12 2024 I: pbuilder-time-stamp: 1716519152 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [soapdenovo_1.05-6.dsc] I: copying [./soapdenovo_1.05.orig.tar.gz] I: copying [./soapdenovo_1.05-6.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Oct 30 22:03:09 2020 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 ./soapdenovo_1.05-6.dsc: no acceptable signature found dpkg-source: info: extracting soapdenovo in soapdenovo-1.05 dpkg-source: info: unpacking soapdenovo_1.05.orig.tar.gz dpkg-source: info: unpacking soapdenovo_1.05-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_debug_symbols.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3339125/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='6594d4e0d0d646b6b6d287ba0486f871' 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='3339125' 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.y3jZuT43/pbuilderrc_6Sde --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.y3jZuT43/b1 --logfile b1/build.log soapdenovo_1.05-6.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom01-amd64 6.1.0-21-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 22 07:42 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3339125/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), rename dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19718 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 rename; however: Package rename 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} libdata-optlist-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libparams-util-perl{a} libpipeline1{a} libsub-exporter-perl{a} libsub-install-perl{a} libsub-override-perl{a} libsub-prototype-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} rename{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 36 newly installed, 0 to remove and 0 not upgraded. Need to get 19.2 MB of archives. After unpacking 74.0 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.1-1 [94.1 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.21-14 [496 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libparams-util-perl amd64 1.102-3 [24.0 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libsub-install-perl all 0.929-1 [10.5 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libsub-prototype-perl amd64 0.03-2+b2 [9744 B] Get: 25 http://deb.debian.org/debian unstable/main amd64 libsub-override-perl all 0.11-1 [10.4 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 28 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b3 [692 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.15.3 [901 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 rename all 2.02-1 [21.8 kB] Fetched 19.2 MB in 0s (55.2 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 ... 19718 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_amd64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_amd64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.1-1_amd64.deb ... Unpacking bsdextrautils (2.40.1-1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.7-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.1-1_amd64.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_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_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... 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 libparams-util-perl. Preparing to unpack .../19-libparams-util-perl_1.102-3_amd64.deb ... Unpacking libparams-util-perl (1.102-3) ... Selecting previously unselected package libsub-install-perl. Preparing to unpack .../20-libsub-install-perl_0.929-1_all.deb ... Unpacking libsub-install-perl (0.929-1) ... Selecting previously unselected package libdata-optlist-perl. Preparing to unpack .../21-libdata-optlist-perl_0.114-1_all.deb ... Unpacking libdata-optlist-perl (0.114-1) ... Selecting previously unselected package libsub-exporter-perl. Preparing to unpack .../22-libsub-exporter-perl_0.990-1_all.deb ... Unpacking libsub-exporter-perl (0.990-1) ... Selecting previously unselected package libsub-prototype-perl. Preparing to unpack .../23-libsub-prototype-perl_0.03-2+b2_amd64.deb ... Unpacking libsub-prototype-perl (0.03-2+b2) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../24-libsub-override-perl_0.11-1_all.deb ... Unpacking libsub-override-perl (0.11-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../25-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 .../26-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../27-libelf1t64_0.191-1+b1_amd64.deb ... Unpacking libelf1t64:amd64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../28-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../29-libicu72_72.1-4+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-4+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../30-libxml2_2.9.14+dfsg-1.3+b3_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../31-gettext_0.21-14+b1_amd64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../32-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 .../33-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../34-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package rename. Preparing to unpack .../35-rename_2.02-1_all.deb ... Unpacking rename (2.02-1) ... Setting up libpipeline1:amd64 (1.5.7-2) ... Setting up libicu72:amd64 (72.1-4+b1) ... Setting up bsdextrautils (2.40.1-1) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up rename (2.02-1) ... update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode Setting up file (1:5.45-3) ... Setting up libsub-install-perl (0.929-1) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up libparams-util-perl (1.102-3) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3+b3) ... 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 gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up groff-base (1.23.0-4) ... Setting up libsub-exporter-perl (0.990-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libsub-prototype-perl (0.03-2+b2) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libsub-override-perl (0.11-1) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up debhelper (13.15.3) ... Processing triggers for libc-bin (2.38-11) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/soapdenovo-1.05/ && 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 > ../soapdenovo_1.05-6_source.changes dpkg-buildpackage: info: source package soapdenovo dpkg-buildpackage: info: source version 1.05-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j12 clean make[1]: Entering directory '/build/reproducible-path/soapdenovo-1.05' make[2]: Entering directory '/build/reproducible-path/soapdenovo-1.05/src/31mer' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. SOAPdenovo-31mer cleaning done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo-1.05/src/31mer' make[2]: Entering directory '/build/reproducible-path/soapdenovo-1.05/src/63mer' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. SOAPdenovo-63mer cleaning done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo-1.05/src/63mer' make[2]: Entering directory '/build/reproducible-path/soapdenovo-1.05/src/127mer' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. SOAPdenovo-127mer cleaning done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo-1.05/src/127mer' make[1]: Leaving directory '/build/reproducible-path/soapdenovo-1.05' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j12 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/soapdenovo-1.05' make[2]: Entering directory '/build/reproducible-path/soapdenovo-1.05/src/31mer' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. Compiling arc.c... Compiling attachPEinfo.c... Compiling bubble.c... Compiling check.c... Compiling compactEdge.c... Compiling concatenateEdge.c... Compiling connect.c... Compiling contig.c... Compiling cutTipPreGraph.c... Compiling cutTip_graph.c... Compiling darray.c... Compiling dfib.c... Compiling dfibHeap.c... Compiling fib.c... Compiling fibHeap.c... Compiling hashFunction.c... Compiling kmer.c... Compiling lib.c... Compiling loadGraph.c... Compiling loadPath.c... Compiling loadPreGraph.c... Compiling localAsm.c... Compiling main.c... Compiling map.c... map.c: In function 'getMinOverlap.constprop': map.c:40:28: warning: '.preGraphBasic' directive writing 14 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 40 | sprintf ( name, "%s.preGraphBasic", gfile ); | ^~~~~~~~~~~~~~ map.c:40:9: note: 'sprintf' output between 15 and 270 bytes into a destination of size 256 40 | sprintf ( name, "%s.preGraphBasic", gfile ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Compiling mem_manager.c... Compiling newhash.c... Compiling node2edge.c... Compiling orderContig.c... Compiling output_contig.c... Compiling output_pregraph.c... Compiling output_scaffold.c... Compiling pregraph.c... Compiling prlHashCtg.c... Compiling prlHashReads.c... Compiling prlRead2Ctg.c... Compiling prlRead2path.c... Compiling prlReadFillGap.c... Compiling read2scaf.c... Compiling readInterval.c... Compiling stack.c... Compiling readseq1by1.c... Compiling scaffold.c... Compiling searchPath.c... Compiling seq.c... Compiling splitReps.c... Linking... SOAPdenovo-31mer compilation done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo-1.05/src/31mer' make[2]: Entering directory '/build/reproducible-path/soapdenovo-1.05/src/63mer' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. Compiling arc.c... Compiling attachPEinfo.c... Compiling bubble.c... Compiling check.c... Compiling compactEdge.c... Compiling concatenateEdge.c... Compiling connect.c... Compiling contig.c... Compiling cutTipPreGraph.c... Compiling cutTip_graph.c... Compiling darray.c... Compiling dfib.c... Compiling dfibHeap.c... Compiling fib.c... Compiling fibHeap.c... Compiling hashFunction.c... Compiling kmer.c... Compiling lib.c... Compiling loadGraph.c... Compiling loadPath.c... Compiling loadPreGraph.c... Compiling localAsm.c... Compiling main.c... Compiling map.c... map.c: In function 'getMinOverlap.constprop': map.c:40:28: warning: '.preGraphBasic' directive writing 14 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 40 | sprintf ( name, "%s.preGraphBasic", gfile ); | ^~~~~~~~~~~~~~ map.c:40:9: note: 'sprintf' output between 15 and 270 bytes into a destination of size 256 40 | sprintf ( name, "%s.preGraphBasic", gfile ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Compiling mem_manager.c... Compiling newhash.c... Compiling node2edge.c... Compiling orderContig.c... Compiling output_contig.c... Compiling output_pregraph.c... Compiling output_scaffold.c... Compiling pregraph.c... Compiling prlHashCtg.c... Compiling prlHashReads.c... Compiling prlRead2Ctg.c... Compiling prlRead2path.c... Compiling prlReadFillGap.c... Compiling read2scaf.c... Compiling readInterval.c... Compiling stack.c... Compiling readseq1by1.c... Compiling scaffold.c... Compiling searchPath.c... Compiling seq.c... Compiling splitReps.c... Linking... SOAPdenovo-63mer compilation done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo-1.05/src/63mer' make[2]: Entering directory '/build/reproducible-path/soapdenovo-1.05/src/127mer' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. Compiling arc.c... Compiling attachPEinfo.c... Compiling bubble.c... Compiling check.c... Compiling compactEdge.c... Compiling concatenateEdge.c... Compiling connect.c... Compiling contig.c... Compiling cutTipPreGraph.c... Compiling cutTip_graph.c... Compiling darray.c... Compiling dfib.c... Compiling dfibHeap.c... Compiling fib.c... Compiling fibHeap.c... Compiling hashFunction.c... Compiling kmer.c... Compiling lib.c... Compiling loadGraph.c... Compiling loadPath.c... Compiling loadPreGraph.c... Compiling localAsm.c... Compiling main.c... Compiling map.c... map.c: In function 'getMinOverlap.constprop': map.c:40:28: warning: '.preGraphBasic' directive writing 14 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 40 | sprintf ( name, "%s.preGraphBasic", gfile ); | ^~~~~~~~~~~~~~ map.c:40:9: note: 'sprintf' output between 15 and 270 bytes into a destination of size 256 40 | sprintf ( name, "%s.preGraphBasic", gfile ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Compiling mem_manager.c... Compiling newhash.c... Compiling node2edge.c... Compiling orderContig.c... Compiling output_contig.c... Compiling output_pregraph.c... Compiling output_scaffold.c... Compiling pregraph.c... Compiling prlHashCtg.c... Compiling prlHashReads.c... Compiling prlRead2Ctg.c... Compiling prlRead2path.c... Compiling prlReadFillGap.c... Compiling read2scaf.c... Compiling readInterval.c... Compiling stack.c... Compiling readseq1by1.c... Compiling scaffold.c... Compiling searchPath.c... Compiling seq.c... Compiling splitReps.c... Linking... SOAPdenovo-127mer compilation done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo-1.05/src/127mer' Installation done. make[1]: Leaving directory '/build/reproducible-path/soapdenovo-1.05' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/soapdenovo/ make -j12 install DESTDIR=/build/reproducible-path/soapdenovo-1.05/debian/soapdenovo AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/soapdenovo-1.05' Installation done. make[1]: Leaving directory '/build/reproducible-path/soapdenovo-1.05' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/soapdenovo-1.05' dh_install cd debian/soapdenovo/usr/bin/;rename 's/SOAP/soap/' SOAP* make[1]: Leaving directory '/build/reproducible-path/soapdenovo-1.05' dh_installdocs dh_installchangelogs dh_installman 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 'soapdenovo-dbgsym' in '../soapdenovo-dbgsym_1.05-6_amd64.deb'. dpkg-deb: building package 'soapdenovo' in '../soapdenovo_1.05-6_amd64.deb'. dpkg-genbuildinfo --build=binary -O../soapdenovo_1.05-6_amd64.buildinfo dpkg-genchanges --build=binary -O../soapdenovo_1.05-6_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/3339125 and its subdirectories I: Current time: Thu May 23 14:54:22 -12 2024 I: pbuilder-time-stamp: 1716519262 Fri May 24 02:54:24 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom02-amd64.debian.net. Fri May 24 02:54:24 UTC 2024 I: Preparing to do remote build '2' on infom02-amd64.debian.net. Fri May 24 02:55:34 UTC 2024 I: Deleting $TMPDIR on infom02-amd64.debian.net. Fri May 24 02:55:35 UTC 2024 I: soapdenovo_1.05-6_amd64.changes: Format: 1.8 Date: Fri, 30 Oct 2020 22:53:04 +0100 Source: soapdenovo Binary: soapdenovo soapdenovo-dbgsym Architecture: amd64 Version: 1.05-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: soapdenovo - short-read assembly method to build de novo draft assembly Changes: soapdenovo (1.05-6) unstable; urgency=medium . * Team upload. * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 13 (routine-update) * Secure URI in copyright format (routine-update) * Remove trailing whitespace in debian/changelog (routine-update) * Remove trailing whitespace in debian/rules (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Remove obsolete field Name from debian/upstream/metadata (already present in machine-readable debian/copyright). * Use -fcommon option to tolerate "multiple definition of" Checksums-Sha1: a23d75c832be6264c713a3474506fd2555749827 893856 soapdenovo-dbgsym_1.05-6_amd64.deb 3b909f5ca296072f48d729f6d6963556b138f831 5202 soapdenovo_1.05-6_amd64.buildinfo 2cb3a20cef0bc8b33a0be3a16b9e8032834c410f 947816 soapdenovo_1.05-6_amd64.deb Checksums-Sha256: c8f5310245bd04ce707cf7137e06b6a8a33c10e01637f59146496f6369374586 893856 soapdenovo-dbgsym_1.05-6_amd64.deb cdd381869447aa46f53701ebda235f68455ba3fbeba732c4a835ddeb86731c44 5202 soapdenovo_1.05-6_amd64.buildinfo 2cbbc3ebff58d564edc9f5bb471bf0316b083d385e9b33145e299f860d73d167 947816 soapdenovo_1.05-6_amd64.deb Files: a07ee49e65a2ae290117bd9d4b15d353 893856 debug optional soapdenovo-dbgsym_1.05-6_amd64.deb d7ba55705daa482c7b49eb1228109bf2 5202 science optional soapdenovo_1.05-6_amd64.buildinfo 81a59749ba5e2f26b3537d91372af519 947816 science optional soapdenovo_1.05-6_amd64.deb Fri May 24 02:55:36 UTC 2024 I: diffoscope 266 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_35-12085.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.y3jZuT43/soapdenovo_1.05-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.y3jZuT43/soapdenovo_1.05-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.y3jZuT43/soapdenovo_1.05-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.y3jZuT43/b1/soapdenovo_1.05-6_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.y3jZuT43/b2/soapdenovo_1.05-6_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: 0.402s) 0.402s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.036s) 0.036s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 792ms CPU time consumed: 790ms Fri May 24 02:55:37 UTC 2024 I: diffoscope 266 found no differences in the changes files, and a .buildinfo file also exists. Fri May 24 02:55:37 UTC 2024 I: soapdenovo from unstable built successfully and reproducibly on amd64. Fri May 24 02:55:39 UTC 2024 I: Submitting .buildinfo files to external archives: Fri May 24 02:55:39 UTC 2024 I: Submitting 8.0K b1/soapdenovo_1.05-6_amd64.buildinfo.asc Fri May 24 02:55:40 UTC 2024 I: Submitting 8.0K b2/soapdenovo_1.05-6_amd64.buildinfo.asc Fri May 24 02:55:40 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri May 24 02:55:40 UTC 2024 I: Done submitting .buildinfo files. Fri May 24 02:55:40 UTC 2024 I: Removing signed soapdenovo_1.05-6_amd64.buildinfo.asc files: removed './b1/soapdenovo_1.05-6_amd64.buildinfo.asc' removed './b2/soapdenovo_1.05-6_amd64.buildinfo.asc'