Tue May 7 14:55:07 UTC 2024 I: starting to build soapdenovo2/trixie/amd64 on jenkins on '2024-05-07 14:54' Tue May 7 14:55:07 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_14/5996/console.log Tue May 7 14:55:07 UTC 2024 I: Downloading source for trixie/soapdenovo2=242+dfsg-3 --2024-05-07 14:55:08-- http://deb.debian.org/debian/pool/main/s/soapdenovo2/soapdenovo2_242%2bdfsg-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2159 (2.1K) [text/prs.lines.tag] Saving to: ‘soapdenovo2_242+dfsg-3.dsc’ 0K .. 100% 276M=0s 2024-05-07 14:55:08 (276 MB/s) - ‘soapdenovo2_242+dfsg-3.dsc’ saved [2159/2159] Tue May 7 14:55:08 UTC 2024 I: soapdenovo2_242+dfsg-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: soapdenovo2 Binary: soapdenovo2 Architecture: any-amd64 any-ppc64 any-ia64 Version: 242+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou , Andreas Tille Homepage: http://soap.genomics.org.cn/soapdenovo.html Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/soapdenovo2 Vcs-Git: https://salsa.debian.org/med-team/soapdenovo2.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbam-dev, libaio-dev, rename Package-List: soapdenovo2 deb science optional arch=any-amd64,any-ppc64,any-ia64 Checksums-Sha1: c817de22b6e7cea70a4be17c869ab04973963eab 251060 soapdenovo2_242+dfsg.orig.tar.xz be102dfb7719db0bd64ab4a31ded26e024cd0a86 487800 soapdenovo2_242+dfsg-3.debian.tar.xz Checksums-Sha256: ff787d4227c9862347663f7426c71b026559720c501033c96190f8aad26549a1 251060 soapdenovo2_242+dfsg.orig.tar.xz cc23a02d18e0762cd6dcb24082df6ae1deb4a31b0a63f0f7dbe987ec13edacb9 487800 soapdenovo2_242+dfsg-3.debian.tar.xz Files: d09be53b4104c67050aa3757c49b19d1 251060 soapdenovo2_242+dfsg.orig.tar.xz d8569d96fa9f54d0b97ce21cc31884a3 487800 soapdenovo2_242+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmOOVHQRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHjiA//bFAVY/ga9ckdP3d9oMacvAE3igdvAg0h cvboksVx1UPmUtR4oQRd1cDXo5chTpAStpmPaTUCKBVIksnVviDvgGLKLplwpxGE iXFoboNUJTOkp8Rv7fR6bQhlmH2NzxRgWc0uiyBLnG44W7V6u2l9lYT/VLzgIzm/ dTVf5Ps1Uie8v5ixJlQIcxgFYyMU/il0aqHA8hz3QmVQpSjb/oRT1W9D9lgT89o4 91Q1VSEI2Np1WnVZ4LqlwskBtBvTiv8GHGGGPKrJKiZFoP9xWzOMX3bDrrcfg6Re S39FfT+UFZvEjg2sgFHF9oVhQyS8V4b9vjLOl2JFgtjYkMqm0HWgSD9aEUaFzeMc pw1dWulJ5qJGpFFY9WYqoTm9lMXTsDYS21U3zd1F2qMkuNXKenx1K06rtelX0Y7r EtxsNA0K6wTvvqZN2fCPT6zcUCkuOLUTe9/n0p66dd4d95OcyOaOVlMT/ve4sR8R GkFiIPZlqODOEnDGznfIhIYZvkvGg5cjcLktWMcWsN9JmjsXm/2GWrc41mS/ahLf Yi1cIZa6lTzzSZO5WwBJAGRX8mQYpYjD/Nqj1YSwxy/qGrBfnCGkrlQD7T+g3EiG OpxGq8A5MhAkHXE3iEJylj2uqEfDkTTfyGWb7MWIHQSv3ZQNL8FC/+IV5zCSGt7m 2B0vuXo8qFA= =vlKs -----END PGP SIGNATURE----- Tue May 7 14:55:08 UTC 2024 I: Checking whether the package is not for us Tue May 7 14:55:08 UTC 2024 I: Starting 1st build on remote node ionos5-amd64.debian.net. Tue May 7 14:55:08 UTC 2024 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Tue May 7 14:57:00 UTC 2024 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Jun 9 09:18:10 -12 2025 I: pbuilder-time-stamp: 1749503890 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 [soapdenovo2_242+dfsg-3.dsc] I: copying [./soapdenovo2_242+dfsg.orig.tar.xz] I: copying [./soapdenovo2_242+dfsg-3.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Dec 5 20:28:36 2022 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 ./soapdenovo2_242+dfsg-3.dsc: no acceptable signature found dpkg-source: info: extracting soapdenovo2 in soapdenovo2-242+dfsg dpkg-source: info: unpacking soapdenovo2_242+dfsg.orig.tar.xz dpkg-source: info: unpacking soapdenovo2_242+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_libsam dpkg-source: info: applying fix_compilation dpkg-source: info: applying fix_usage_name dpkg-source: info: applying add_hardening dpkg-source: info: applying use_debian_zlib dpkg-source: info: applying reproducible dpkg-source: info: applying gcc-10.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1410061/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='c957dd8e87bf43c38a7818785feed881' 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='1410061' 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.8dpxMBQL/pbuilderrc_bHGx --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.8dpxMBQL/b1 --logfile b1/build.log soapdenovo2_242+dfsg-3.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 7 17:46 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1410061/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), zlib1g-dev, libbam-dev, libaio-dev, 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 ... 19698 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 zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbam-dev; however: Package libbam-dev is not installed. pbuilder-satisfydepends-dummy depends on libaio-dev; however: Package libaio-dev 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} libaio-dev{a} libaio1t64{a} libarchive-zip-perl{a} libbam-dev{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} rename{a} sensible-utils{a} zlib1g-dev{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, 35 newly installed, 0 to remove and 0 not upgraded. Need to get 20.2 MB of archives. After unpacking 75.5 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40-8 [92.8 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.21-14 [496 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 23 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b3 [692 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.15.3 [901 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libaio1t64 amd64 0.3.113-8 [14.6 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libaio-dev amd64 0.3.113-8 [31.1 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3.1 [918 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libbam-dev amd64 0.1.19+dfsg-6 [118 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 rename all 2.02-1 [21.8 kB] Fetched 20.2 MB in 0s (133 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 ... 19698 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_2.40-8_amd64.deb ... Unpacking bsdextrautils (2.40-8) ... 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 libsub-override-perl. Preparing to unpack .../19-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../21-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../22-libelf1t64_0.191-1+b1_amd64.deb ... Unpacking libelf1t64:amd64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../24-libicu72_72.1-4+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-4+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../25-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 .../26-gettext_0.21-14+b1_amd64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../27-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../28-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../29-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package libaio1t64:amd64. Preparing to unpack .../30-libaio1t64_0.3.113-8_amd64.deb ... Unpacking libaio1t64:amd64 (0.3.113-8) ... Selecting previously unselected package libaio-dev:amd64. Preparing to unpack .../31-libaio-dev_0.3.113-8_amd64.deb ... Unpacking libaio-dev:amd64 (0.3.113-8) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg-3.1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg-3.1) ... Selecting previously unselected package libbam-dev. Preparing to unpack .../33-libbam-dev_0.1.19+dfsg-6_amd64.deb ... Unpacking libbam-dev (0.1.19+dfsg-6) ... Selecting previously unselected package rename. Preparing to unpack .../34-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 (2.40-8) ... 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 libelf1t64:amd64 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg-3.1) ... Setting up dwz (0.15-1+b1) ... Setting up libaio1t64:amd64 (0.3.113-8) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... 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 libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up libaio-dev:amd64 (0.3.113-8) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbam-dev (0.1.19+dfsg-6) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.15.3) ... Processing triggers for libc-bin (2.38-7) ... 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/soapdenovo2-242+dfsg/ && 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 > ../soapdenovo2_242+dfsg-3_source.changes dpkg-buildpackage: info: source package soapdenovo2 dpkg-buildpackage: info: source version 242+dfsg-3 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 --no-parallel dh_auto_clean -O--no-parallel make -j1 clean make[1]: Entering directory '/build/reproducible-path/soapdenovo2-242+dfsg' pregraph_sparse_63mer.v1.0.3 cleaning done. SOAPdenovo-63mer cleaning done. SOAPdenovo-fusion cleaning done. make[1]: Leaving directory '/build/reproducible-path/soapdenovo2-242+dfsg' dh_autoreconf_clean -O--no-parallel debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/soapdenovo2-242+dfsg' cd standardPregraph && make 63mer=1 clean && make 127mer=1 clean make[2]: Entering directory '/build/reproducible-path/soapdenovo2-242+dfsg/standardPregraph' SOAPdenovo-63mer cleaning done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo2-242+dfsg/standardPregraph' make[2]: Entering directory '/build/reproducible-path/soapdenovo2-242+dfsg/standardPregraph' SOAPdenovo-127mer cleaning done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo2-242+dfsg/standardPregraph' cd sparsePregraph && make clean make[2]: Entering directory '/build/reproducible-path/soapdenovo2-242+dfsg/sparsePregraph' pregraph_sparse_63mer.v1.0.3 cleaning done. make[2]: Leaving directory '/build/reproducible-path/soapdenovo2-242+dfsg/sparsePregraph' dh_clean make[1]: Leaving directory '/build/reproducible-path/soapdenovo2-242+dfsg' debian/rules binary dh binary --no-parallel dh_update_autotools_config -O--no-parallel dh_autoreconf -O--no-parallel dh_auto_configure -O--no-parallel dh_auto_build -O--no-parallel make -j1 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/soapdenovo2-242+dfsg' pregraph_sparse_63mer.v1.0.3 cleaning done. Compiling build_graph.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling build_edge.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling multi_threads.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling build_preArc.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling pregraph_sparse.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling io_func.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling global.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling convert_soapdenovo.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ pregraph_sparse_63mer.v1.0.3 objects generated. SOAPdenovo-63mer cleaning done. 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... 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... Compiling cutTip_graph2.c... Compiling linearEdge.c... Compiling kmerhash.c... Compiling read2edge.c... Compiling iterate.c... SOAPdenovo-63mer objects generated. pregraph_sparse_127mer.v1.0.3 cleaning done. Compiling build_graph.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling build_edge.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling multi_threads.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling build_preArc.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling pregraph_sparse.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling io_func.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling global.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ Compiling convert_soapdenovo.cpp... cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ pregraph_sparse_127mer.v1.0.3 objects generated. SOAPdenovo-127mer cleaning done. 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... 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... Compiling cutTip_graph2.c... Compiling linearEdge.c... Compiling kmerhash.c... Compiling read2edge.c... Compiling iterate.c... SOAPdenovo-127mer objects generated. Compiling searchPath.c... Compiling scaffold.c... Compiling check.c... Compiling seq.c... Compiling bundle.c... Compiling potential.c... Compiling loadGraph.c... Compiling mem_manager.c... Compiling attachPEinfo.c... Compiling newhash.c... Compiling output_scaffold.c... Compiling orderContig.c... Compiling connect.c... Compiling hashFunction.c... Compiling readseq1by1.c... Compiling fib.c... Compiling fibHeap.c... Compiling stack.c... Compiling kmer.c... Compiling prepare.c... Compiling prlHashCtg.c... Compiling prlRead2Ctg.c... Compiling map.c... Compiling localAsm.c... Compiling lib.c... Compiling darray.c... Compiling prlReadFillGap.c... Compiling read2scaf.c... Compiling main.c... Making SOAPdenovo-fusion... SOAPdenovo-fusion compilation done. make[1]: Leaving directory '/build/reproducible-path/soapdenovo2-242+dfsg' dh_auto_test -O--no-parallel create-stamp debian/debhelper-build-stamp dh_testroot -O--no-parallel dh_prep -O--no-parallel dh_auto_install --destdir=debian/soapdenovo2/ -O--no-parallel debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/soapdenovo2-242+dfsg' dh_install cd debian/soapdenovo2/usr/bin/;rename 's/SOAPdenovo/soapdenovo2/' SOAP* make[1]: Leaving directory '/build/reproducible-path/soapdenovo2-242+dfsg' dh_installdocs -O--no-parallel dh_installchangelogs -O--no-parallel dh_installman -O--no-parallel dh_installsystemduser -O--no-parallel dh_perl -O--no-parallel dh_link -O--no-parallel dh_strip_nondeterminism -O--no-parallel dh_compress -O--no-parallel dh_fixperms -O--no-parallel dh_missing -O--no-parallel dh_dwz -a -O--no-parallel dh_strip -a -O--no-parallel dh_makeshlibs -a -O--no-parallel dh_shlibdeps -a -O--no-parallel dh_installdeb -O--no-parallel dh_gencontrol -O--no-parallel dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel dpkg-deb: building package 'soapdenovo2' in '../soapdenovo2_242+dfsg-3_amd64.deb'. dpkg-deb: building package 'soapdenovo2-dbgsym' in '../soapdenovo2-dbgsym_242+dfsg-3_amd64.deb'. dpkg-genbuildinfo --build=binary -O../soapdenovo2_242+dfsg-3_amd64.buildinfo dpkg-genchanges --build=binary -O../soapdenovo2_242+dfsg-3_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/1410061 and its subdirectories I: Current time: Mon Jun 9 09:19:58 -12 2025 I: pbuilder-time-stamp: 1749503998 Tue May 7 14:57:00 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Tue May 7 14:57:00 UTC 2024 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Tue May 7 15:00:18 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Tue May 7 15:00:19 UTC 2024 I: soapdenovo2_242+dfsg-3_amd64.changes: Format: 1.8 Date: Mon, 05 Dec 2022 21:06:07 +0100 Source: soapdenovo2 Binary: soapdenovo2 soapdenovo2-dbgsym Architecture: amd64 Version: 242+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: soapdenovo2 - short-read assembly method to build de novo draft assembly Changes: soapdenovo2 (242+dfsg-3) unstable; urgency=medium . * Fix watch file * Standards-Version: 4.6.1 (routine-update) Checksums-Sha1: 74ed0781ebaff7a258ceff58191df14cfc2c53ef 1433032 soapdenovo2-dbgsym_242+dfsg-3_amd64.deb f5a58d76e93b708bc5e01b1a6b842a504bd23f5a 5329 soapdenovo2_242+dfsg-3_amd64.buildinfo c493764a8d8b72adbab5ad70ccbeaa5ad767b33e 928972 soapdenovo2_242+dfsg-3_amd64.deb Checksums-Sha256: 7cea50e020bbf353d29cfc20a7de9d4d63b4f898404e7220a536695a062200fe 1433032 soapdenovo2-dbgsym_242+dfsg-3_amd64.deb 5d52520d40b6ea70fe2a4e1e5410151d5d34e0067167ac733fae00c1f04dc194 5329 soapdenovo2_242+dfsg-3_amd64.buildinfo 4914610d1a01ce27f9d398576e2f67b4c37d60c2d6ad018a81ad1ae56a38624a 928972 soapdenovo2_242+dfsg-3_amd64.deb Files: 96993fa1c2b747cac04df0f70c6e9d33 1433032 debug optional soapdenovo2-dbgsym_242+dfsg-3_amd64.deb e7b1b038764bee510c9b406be56a1ebd 5329 science optional soapdenovo2_242+dfsg-3_amd64.buildinfo db7bffad915fbc35d6ecde7439a96970 928972 science optional soapdenovo2_242+dfsg-3_amd64.deb Tue May 7 15:00:20 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_14-5996.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.8dpxMBQL/soapdenovo2_242+dfsg-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.8dpxMBQL/soapdenovo2_242+dfsg-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.8dpxMBQL/soapdenovo2_242+dfsg-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.8dpxMBQL/b1/soapdenovo2_242+dfsg-3_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.8dpxMBQL/b2/soapdenovo2_242+dfsg-3_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: 0.384s) 0.384s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.040s) 0.040s 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: 740ms CPU time consumed: 739ms Tue May 7 15:00:21 UTC 2024 I: diffoscope 265 found no differences in the changes files, and a .buildinfo file also exists. Tue May 7 15:00:21 UTC 2024 I: soapdenovo2 from trixie built successfully and reproducibly on amd64. Tue May 7 15:00:23 UTC 2024 I: Submitting .buildinfo files to external archives: Tue May 7 15:00:23 UTC 2024 I: Submitting 8.0K b1/soapdenovo2_242+dfsg-3_amd64.buildinfo.asc Tue May 7 15:00:24 UTC 2024 I: Submitting 8.0K b2/soapdenovo2_242+dfsg-3_amd64.buildinfo.asc Tue May 7 15:00:24 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue May 7 15:00:24 UTC 2024 I: Done submitting .buildinfo files. Tue May 7 15:00:24 UTC 2024 I: Removing signed soapdenovo2_242+dfsg-3_amd64.buildinfo.asc files: removed './b1/soapdenovo2_242+dfsg-3_amd64.buildinfo.asc' removed './b2/soapdenovo2_242+dfsg-3_amd64.buildinfo.asc'