Thu Mar 13 18:30:43 UTC 2025 I: starting to build nxtrim/unstable/amd64 on jenkins on '2025-03-13 18:30' Thu Mar 13 18:30:43 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_19/48185/console.log Thu Mar 13 18:30:43 UTC 2025 I: Downloading source for unstable/nxtrim=0.4.3+dfsg-4 --2025-03-13 18:30:44-- http://deb.debian.org/debian/pool/main/n/nxtrim/nxtrim_0.4.3%2bdfsg-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1983 (1.9K) [text/prs.lines.tag] Saving to: ‘nxtrim_0.4.3+dfsg-4.dsc’ 0K . 100% 348M=0s 2025-03-13 18:30:44 (348 MB/s) - ‘nxtrim_0.4.3+dfsg-4.dsc’ saved [1983/1983] Thu Mar 13 18:30:44 UTC 2025 I: nxtrim_0.4.3+dfsg-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: nxtrim Binary: nxtrim Architecture: any Version: 0.4.3+dfsg-4 Maintainer: Debian Med Packaging Team Uploaders: Nilesh Patra Homepage: https://github.com/sequencing/NxTrim Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/nxtrim Vcs-Git: https://salsa.debian.org/med-team/nxtrim.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev Package-List: nxtrim deb science optional arch=any Checksums-Sha1: 9a4f27ce5abe719114f9a9309e5e15118ed63c16 65903 nxtrim_0.4.3+dfsg.orig.tar.gz 4799ffd78558087a46f8612aad867eb739974a26 5092 nxtrim_0.4.3+dfsg-4.debian.tar.xz Checksums-Sha256: 3b1fdfc3a7296d0a54a622ecc0be4e9e25b513b762727fb066ad78795d171c04 65903 nxtrim_0.4.3+dfsg.orig.tar.gz a7972e7a9e9beab905f6302b1cc20f483de4637cd6d8d2dfafe462272722f326 5092 nxtrim_0.4.3+dfsg-4.debian.tar.xz Files: be88d0019dd82dc1696dfd2d6c185c47 65903 nxtrim_0.4.3+dfsg.orig.tar.gz d115a4261a399956cb2d527401acf856 5092 nxtrim_0.4.3+dfsg-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmdl3g0RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFG/g/9El/DovGD6fH9/BGgzXrDdM/qn3eZuQ3O f4j4xMw2+OQrqPmsF9GjY2NHiYaYARyIiDKoN7wzcTuahsDkNgOkKLLcBLP58zVA cneS6G57cVCibz+I7bLK96AlwwZU84S1p+oicxRuDvW2z6LRFcV+RwWc9+X8s0h8 ldfMZQ8aHQIRLbac3QTXrG9v5P6PZZEdNrflCeG7XV9kRxptoibju8dPiDapjk94 lFgT18C0JQRSENOyUhX50Wid69hay7AbYWpGhaQ7wdDo2w3a4HgY3pLETMkHaMX/ IR9SuZ4uQbxpzMI/qx3bX7clnJYIl+LdlvbWZFUhfvmBKUSzhT5FJpgPM3W9FpbT 79I/GzXkdkqEAt/veyGPB9ApXTiI75soPRW94LXyumluD7wqXSVufgz4QAKydGZi cSOAJrJp/+iOZMh69Q3biXdo6lhyxfBwRjs940wmPceC9KhSZvyUtkWFabc2F+iI hsMG1qB5eX9WbTWq+px1qOI1ARMmCy4JS5qUpqj619caGw4kRWLDXgO6kKpSV5Jq 54jT9ahI1EGCIzZOP2z0dN7F6kerDRp60fJ94Oe5+DfvpKocSi/4ZFZC9XM4I2xo rhE+MMOKPfBDN3I9XZ5/5W95Yvexs/mLsu0UFrW0JvGX1dANBpmLNqLjUu4dOux/ 7IWBQS8PEb8= =N7Vw -----END PGP SIGNATURE----- Thu Mar 13 18:30:44 UTC 2025 I: Checking whether the package is not for us Thu Mar 13 18:30:44 UTC 2025 I: Starting 1st build on remote node ionos1-amd64.debian.net. Thu Mar 13 18:30:44 UTC 2025 I: Preparing to do remote build '1' on ionos1-amd64.debian.net. Thu Mar 13 18:32:19 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Mar 13 06:30:46 -12 2025 I: pbuilder-time-stamp: 1741890646 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 [nxtrim_0.4.3+dfsg-4.dsc] I: copying [./nxtrim_0.4.3+dfsg.orig.tar.gz] I: copying [./nxtrim_0.4.3+dfsg-4.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./nxtrim_0.4.3+dfsg-4.dsc: unsupported subcommand dpkg-source: info: extracting nxtrim in nxtrim-0.4.3+dfsg dpkg-source: info: unpacking nxtrim_0.4.3+dfsg.orig.tar.gz dpkg-source: info: unpacking nxtrim_0.4.3+dfsg-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying do-not-remove-non-existing.patch dpkg-source: info: applying make-script-executable.patch dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1715441/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=20 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='cfcbab67d8e24b2ba269fb42a0915148' 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='1715441' 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.lbxXi3TH/pbuilderrc_9DY2 --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.lbxXi3TH/b1 --logfile b1/build.log nxtrim_0.4.3+dfsg-4.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://46.16.76.132:3128' I: uname -a Linux ionos1-amd64 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1715441/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 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19783 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. 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} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 31 newly installed, 0 to remove and 0 not upgraded. Need to get 21.5 MB of archives. After unpacking 79.3 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-5 [92.4 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-7 [294 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 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 1:1.17-3 [862 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 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 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b2 [699 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Fetched 21.5 MB in 1s (35.3 MB/s) Preconfiguring packages ... 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 ... 19783 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.4-5_amd64.deb ... Unpacking bsdextrautils (2.40.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-7_amd64.deb ... Unpacking m4 (1.4.19-7) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... 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%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-4_all.deb ... Unpacking libtool (2.5.4-4) ... 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 libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../23-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../24-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../25-libxml2_2.12.7+dfsg+really2.9.14-0.2+b2_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b2) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.23.1-1_amd64.deb ... Unpacking gettext (0.23.1-1) ... 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_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../30-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-5) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.1) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-7) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up libunistring5:amd64 (1.3-1) ... Setting up autopoint (0.23.1-1) ... Setting up autoconf (2.72-3) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b2) ... Setting up automake (1:1.17-3) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.24.1) ... Processing triggers for libc-bin (2.41-4) ... 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/nxtrim-0.4.3+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 > ../nxtrim_0.4.3+dfsg-4_source.changes dpkg-buildpackage: info: source package nxtrim dpkg-buildpackage: info: source version 0.4.3+dfsg-4 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 -j20 clean make[1]: Entering directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' make[1]: git: No such file or directory rm -f matepair.o fastqlib.o utilityfunc.o nxtrim version.h rm -rf test/output_dir/ rm -f test/*bam test/*pe.fastq.gz test/*mp.fastq.gz test/*unknown.fastq.gz make[1]: Leaving directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j20 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' make[1]: git: No such file or directory g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/nxtrim-0.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o matepair.o matepair.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/nxtrim-0.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o fastqlib.o fastqlib.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/nxtrim-0.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o utilityfunc.o utilityfunc.cpp echo '#define VERSION "v0.4.3"' > version.h g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/nxtrim-0.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection nxtrim.cpp matepair.o fastqlib.o utilityfunc.o -lz -o nxtrim -Wl,-z,relro -Wl,-z,now make[1]: Leaving directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' cp -a example example.bak dh_auto_test make -j20 test make[2]: Entering directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' make[2]: git: No such file or directory bash -e example/run_test.sh Output: example/ENA.*.fastq.gz Trimming: R1: example/ENA_R1.fastq.gz R2: example/ENA_R2.fastq.gz Trimming summary: 1 / 1 ( 100.00% ) reads passed chastity/purity filters. 0 / 1 ( 0.00% ) reads had multiple copies of adapter (filtered). 0 / 1 ( 0.00% ) read pairs were ignored because template length appeared less than read length 1 remaining reads were trimmed 0 / 1 ( 0.00% ) read pairs had MP orientation 1 / 1 ( 100.00% ) read pairs had PE orientation 0 / 1 ( 0.00% ) read pairs had unknown orientation 0 / 1 ( 0.00% ) were single end reads 0 / 1 ( 0.00% ) extra single end reads were generated from overhangs Output: example/example11.*.fastq.gz Trimming: R1: example/example11_R1.fastq.gz R2: example/example11_R2.fastq.gz WARNING: reads with differing lengths. Has this data already been processed with nxtrim? Trimming summary: 1 / 1 ( 100.00% ) reads passed chastity/purity filters. 0 / 1 ( 0.00% ) reads had multiple copies of adapter (filtered). 0 / 1 ( 0.00% ) read pairs were ignored because template length appeared less than read length 1 remaining reads were trimmed 0 / 1 ( 0.00% ) read pairs had MP orientation 0 / 1 ( 0.00% ) read pairs had PE orientation 1 / 1 ( 100.00% ) read pairs had unknown orientation 0 / 1 ( 0.00% ) were single end reads 0 / 1 ( 0.00% ) extra single end reads were generated from overhangs Output: example/EXTERNAL.*.fastq.gz Trimming: R1: example/EXTERNAL_R1.fastq.gz R2: example/EXTERNAL_R2.fastq.gz Trimming summary: 1 / 1 ( 100.00% ) reads passed chastity/purity filters. 0 / 1 ( 0.00% ) reads had multiple copies of adapter (filtered). 0 / 1 ( 0.00% ) read pairs were ignored because template length appeared less than read length 1 remaining reads were trimmed 0 / 1 ( 0.00% ) read pairs had MP orientation 1 / 1 ( 100.00% ) read pairs had PE orientation 0 / 1 ( 0.00% ) read pairs had unknown orientation 0 / 1 ( 0.00% ) were single end reads 0 / 1 ( 0.00% ) extra single end reads were generated from overhangs Output: example/FailPF.*.fastq.gz Trimming: R1: example/FailPF_R1.fastq.gz R2: example/FailPF_R2.fastq.gz Trimming summary: 0 / 1 ( 0.00% ) reads passed chastity/purity filters. 0 / 0 ( -nan% ) reads had multiple copies of adapter (filtered). 0 / 0 ( -nan% ) read pairs were ignored because template length appeared less than read length 0 remaining reads were trimmed 0 / 0 ( -nan% ) read pairs had MP orientation 0 / 0 ( -nan% ) read pairs had PE orientation 0 / 0 ( -nan% ) read pairs had unknown orientation 0 / 0 ( -nan% ) were single end reads 0 / 0 ( -nan% ) extra single end reads were generated from overhangs Output: example/MP.*.fastq.gz Trimming: R1: example/MP_R1.fastq.gz R2: example/MP_R2.fastq.gz Trimming summary: 54 / 54 ( 100.00% ) reads passed chastity/purity filters. 0 / 54 ( 0.00% ) reads had multiple copies of adapter (filtered). 0 / 54 ( 0.00% ) read pairs were ignored because template length appeared less than read length 54 remaining reads were trimmed 54 / 54 ( 100.00% ) read pairs had MP orientation 0 / 54 ( 0.00% ) read pairs had PE orientation 0 / 54 ( 0.00% ) read pairs had unknown orientation 0 / 54 ( 0.00% ) were single end reads 0 / 54 ( 0.00% ) extra single end reads were generated from overhangs Output: example/PE.*.fastq.gz Trimming: R1: example/PE_R1.fastq.gz R2: example/PE_R2.fastq.gz Trimming summary: 55 / 55 ( 100.00% ) reads passed chastity/purity filters. 0 / 55 ( 0.00% ) reads had multiple copies of adapter (filtered). 1 / 55 ( 1.82% ) read pairs were ignored because template length appeared less than read length 54 remaining reads were trimmed 0 / 54 ( 0.00% ) read pairs had MP orientation 54 / 54 ( 100.00% ) read pairs had PE orientation 0 / 54 ( 0.00% ) read pairs had unknown orientation 0 / 54 ( 0.00% ) were single end reads 0 / 54 ( 0.00% ) extra single end reads were generated from overhangs Output: example/sample.*.fastq.gz Trimming: R1: example/sample_R1.fastq.gz R2: example/sample_R2.fastq.gz Trimming summary: 163 / 163 ( 100.00% ) reads passed chastity/purity filters. 0 / 163 ( 0.00% ) reads had multiple copies of adapter (filtered). 1 / 163 ( 0.61% ) read pairs were ignored because template length appeared less than read length 162 remaining reads were trimmed 54 / 162 ( 33.33% ) read pairs had MP orientation 54 / 162 ( 33.33% ) read pairs had PE orientation 54 / 162 ( 33.33% ) read pairs had unknown orientation 0 / 162 ( 0.00% ) were single end reads 0 / 162 ( 0.00% ) extra single end reads were generated from overhangs Output: example/UNKNOWN.*.fastq.gz Trimming: R1: example/UNKNOWN_R1.fastq.gz R2: example/UNKNOWN_R2.fastq.gz Trimming summary: 54 / 54 ( 100.00% ) reads passed chastity/purity filters. 0 / 54 ( 0.00% ) reads had multiple copies of adapter (filtered). 0 / 54 ( 0.00% ) read pairs were ignored because template length appeared less than read length 54 remaining reads were trimmed 0 / 54 ( 0.00% ) read pairs had MP orientation 0 / 54 ( 0.00% ) read pairs had PE orientation 54 / 54 ( 100.00% ) read pairs had unknown orientation 0 / 54 ( 0.00% ) were single end reads 0 / 54 ( 0.00% ) extra single end reads were generated from overhangs make[2]: Leaving directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' rm -rf example mv example.bak example make[1]: Leaving directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/nxtrim/ dh_install 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 'nxtrim' in '../nxtrim_0.4.3+dfsg-4_amd64.deb'. dpkg-deb: building package 'nxtrim-dbgsym' in '../nxtrim-dbgsym_0.4.3+dfsg-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../nxtrim_0.4.3+dfsg-4_amd64.buildinfo dpkg-genchanges --build=binary -O../nxtrim_0.4.3+dfsg-4_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/1715441 and its subdirectories I: Current time: Thu Mar 13 06:32:18 -12 2025 I: pbuilder-time-stamp: 1741890738 Thu Mar 13 18:32:20 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Thu Mar 13 18:32:20 UTC 2025 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Thu Mar 13 18:35:05 UTC 2025 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Thu Mar 13 18:35:06 UTC 2025 I: nxtrim_0.4.3+dfsg-4_amd64.changes: Format: 1.8 Date: Fri, 20 Dec 2024 22:12:03 +0100 Source: nxtrim Binary: nxtrim nxtrim-dbgsym Architecture: amd64 Version: 0.4.3+dfsg-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: nxtrim - Optimized trimming of Illumina mate pair reads Closes: 1045354 Changes: nxtrim (0.4.3+dfsg-4) unstable; urgency=medium . * Team upload * Cleanup after running build time test Closes: #1045354 * Standards-Version: 4.7.0 (routine-update) Checksums-Sha1: 0ae19aa552f3855c0916003273250c81ba944991 327240 nxtrim-dbgsym_0.4.3+dfsg-4_amd64.deb de06470bb50cd9f65fa4fa08de7049a854d1dacc 4930 nxtrim_0.4.3+dfsg-4_amd64.buildinfo ccebc8fb42f09156d4a01673ce2ddd8b9ec5044e 37300 nxtrim_0.4.3+dfsg-4_amd64.deb Checksums-Sha256: 4d39c1fdf35e6ad7278a039bc04fa02170996d5996ba66f070417afdc0aa48a4 327240 nxtrim-dbgsym_0.4.3+dfsg-4_amd64.deb 2b6c2fb3f2f8679f1740028215f1863f570148699fabe677e7b6419b8c1d17de 4930 nxtrim_0.4.3+dfsg-4_amd64.buildinfo 75915e5a09767f4417d8beaf3e3255ace787efebe06e809c7cba3a0401e847c3 37300 nxtrim_0.4.3+dfsg-4_amd64.deb Files: 3d7086c3984a413cefef505df9b4c0f8 327240 debug optional nxtrim-dbgsym_0.4.3+dfsg-4_amd64.deb d9fe2c480f8d6531e48e3870c3338a63 4930 science optional nxtrim_0.4.3+dfsg-4_amd64.buildinfo 071ec1bd31838545455fed38b7e76e81 37300 science optional nxtrim_0.4.3+dfsg-4_amd64.deb Thu Mar 13 18:35:07 UTC 2025 I: diffoscope 289 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_19-48185.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.lbxXi3TH/nxtrim_0.4.3+dfsg-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.lbxXi3TH/nxtrim_0.4.3+dfsg-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.lbxXi3TH/nxtrim_0.4.3+dfsg-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.lbxXi3TH/b1/nxtrim_0.4.3+dfsg-4_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.lbxXi3TH/b2/nxtrim_0.4.3+dfsg-4_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 diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.004s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 229ms CPU time consumed: 230ms Thu Mar 13 18:35:08 UTC 2025 I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists. Thu Mar 13 18:35:08 UTC 2025 I: nxtrim from unstable built successfully and reproducibly on amd64. Thu Mar 13 18:35:09 UTC 2025 I: Submitting .buildinfo files to external archives: Thu Mar 13 18:35:09 UTC 2025 I: Submitting 8.0K b1/nxtrim_0.4.3+dfsg-4_amd64.buildinfo.asc Thu Mar 13 18:35:10 UTC 2025 I: Submitting 8.0K b2/nxtrim_0.4.3+dfsg-4_amd64.buildinfo.asc Thu Mar 13 18:35:10 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Mar 13 18:35:10 UTC 2025 I: Done submitting .buildinfo files. Thu Mar 13 18:35:10 UTC 2025 I: Removing signed nxtrim_0.4.3+dfsg-4_amd64.buildinfo.asc files: removed './b1/nxtrim_0.4.3+dfsg-4_amd64.buildinfo.asc' removed './b2/nxtrim_0.4.3+dfsg-4_amd64.buildinfo.asc'