Sun Apr 23 15:04:42 UTC 2023 I: starting to build skewer/bookworm/arm64 on jenkins on '2023-04-23 15:04' Sun Apr 23 15:04:42 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_28/12359/console.log Sun Apr 23 15:04:42 UTC 2023 I: Downloading source for bookworm/skewer=0.2.2-6 --2023-04-23 15:04:42-- http://cdn-fastly.deb.debian.org/debian/pool/main/s/skewer/skewer_0.2.2-6.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1941 (1.9K) [text/prs.lines.tag] Saving to: ‘skewer_0.2.2-6.dsc’ 0K . 100% 8.31M=0s 2023-04-23 15:04:42 (8.31 MB/s) - ‘skewer_0.2.2-6.dsc’ saved [1941/1941] Sun Apr 23 15:04:42 UTC 2023 I: skewer_0.2.2-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: skewer Binary: skewer Architecture: any Version: 0.2.2-6 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://github.com/relipmoc/skewer Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/skewer Vcs-Git: https://salsa.debian.org/med-team/skewer.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: skewer deb science optional arch=any Checksums-Sha1: 110d99ccee1e420c06b0848a9281a5b509aa32bd 36382 skewer_0.2.2.orig.tar.gz f6b1939c59dd2009a1414218b51577e654648973 21760 skewer_0.2.2-6.debian.tar.xz Checksums-Sha256: bc37afccdf55de047502b87fe56d537cdf78674ccaec1a401b2d29552d6b2dfc 36382 skewer_0.2.2.orig.tar.gz 7f803eb0fcf8e686dba035f1a4650671dc7491e54f34a37166f523dd72f85f54 21760 skewer_0.2.2-6.debian.tar.xz Files: 082f62f7e1ff27cd1b7e66269d46653e 36382 skewer_0.2.2.orig.tar.gz 758e814eca486d235c243ff9e0825a8e 21760 skewer_0.2.2-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAmF+q5QSHG5pbGVzaEBk ZWJpYW4ub3JnAAoJEAC650s0M2nxabYQAImxcUKepU7j25K1tLT2ECazMAxMz1ZH Herdl6/89IBfVfIyiqlD2U9wh66L28hukmRZP7gwZ0fivgivTZDD25uSDvhuaETU iOHncD5vN8bNLZTVMGW6env4m6j+jAujLNHgtGJhPC7dNazbfHWySBNmFkAgPimh MyAUhQf+8YtP+0XIwlW7Hfb+GrWczr7wq7cqFTxU4n26KDWR+3k2cpan4WwCnEKP ygHUut80G65cR1VuQM9uKj2QDdUyni9JbtwRlUz3fF+MUFMrIn7tfE6bnaBdkdEK 8VxGGHwYotD68yUBMO/qxgF9Q2/621bzKPmG/BGojVNaLf6Ui0KQtkQhym4gZwfK raiMqCOwViLMneaXTui+DISpahADTk1VOvVIynf3fUG6Dl2kGmE299kN8SjEknzF LTo21yOjam7EbzoqY2wLPEUgCblRFog5xvn04/fnddmLw5lzk179lrFGmTRWNqk2 TPJ5dl+CwOTGZK3c93PcD57++z3CQygh/h6MTQhAWUoDq9aZgX/74+GdCzT7rV5I jhBVE91dUI3rajDhU4h9iBbTCcf+iRQtTHFVELmzg3gKIdsuyOQ08oo4D7gkFF9a 9XFDq8mm9HT2GaLwZa4Rl24xVDOkWUUAXjRMO1pApKr7joUHSD02s9V6sBe+e92o 3gk3/rzgWk56 =vj6E -----END PGP SIGNATURE----- Sun Apr 23 15:04:42 UTC 2023 I: Checking whether the package is not for us Sun Apr 23 15:04:42 UTC 2023 I: Starting 1st build on remote node codethink15-arm64.debian.net. Sun Apr 23 15:04:42 UTC 2023 I: Preparing to do remote build '1' on codethink15-arm64.debian.net. Sun Apr 23 15:05:50 UTC 2023 I: Deleting $TMPDIR on codethink15-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat May 25 09:27:45 -12 2024 I: pbuilder-time-stamp: 1716672465 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [skewer_0.2.2-6.dsc] I: copying [./skewer_0.2.2.orig.tar.gz] I: copying [./skewer_0.2.2-6.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Oct 31 02:43:32 2021 -12 gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "nilesh@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./skewer_0.2.2-6.dsc: no acceptable signature found dpkg-source: info: extracting skewer in skewer-0.2.2 dpkg-source: info: unpacking skewer_0.2.2.orig.tar.gz dpkg-source: info: unpacking skewer_0.2.2-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fixMakefile.patch dpkg-source: info: applying gcc11.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/27324/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8' DISTRIBUTION='bookworm' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='27324' 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.y1SeuWcE/pbuilderrc_qJcm --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.y1SeuWcE/b1 --logfile b1/build.log skewer_0.2.2-6.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink15-arm64 4.15.0-209-generic #220-Ubuntu SMP Tue Mar 21 19:52:44 UTC 2023 aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 24 04:47 /bin -> usr/bin I: user script /srv/workspace/pbuilder/27324/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19616 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. 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} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 18.3 MB of archives. After unpacking 74.4 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main arm64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main arm64 libmagic-mgc arm64 1:5.44-3 [305 kB] Get: 3 http://deb.debian.org/debian bookworm/main arm64 libmagic1 arm64 1:5.44-3 [98.5 kB] Get: 4 http://deb.debian.org/debian bookworm/main arm64 file arm64 1:5.44-3 [42.5 kB] Get: 5 http://deb.debian.org/debian bookworm/main arm64 gettext-base arm64 0.21-12 [159 kB] Get: 6 http://deb.debian.org/debian bookworm/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 7 http://deb.debian.org/debian bookworm/main arm64 groff-base arm64 1.22.4-10 [861 kB] Get: 8 http://deb.debian.org/debian bookworm/main arm64 bsdextrautils arm64 2.38.1-5+b1 [86.9 kB] Get: 9 http://deb.debian.org/debian bookworm/main arm64 libpipeline1 arm64 1.5.7-1 [36.4 kB] Get: 10 http://deb.debian.org/debian bookworm/main arm64 man-db arm64 2.11.2-2 [1369 kB] Get: 11 http://deb.debian.org/debian bookworm/main arm64 m4 arm64 1.4.19-3 [276 kB] Get: 12 http://deb.debian.org/debian bookworm/main arm64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian bookworm/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian bookworm/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian bookworm/main arm64 autopoint all 0.21-12 [495 kB] Get: 16 http://deb.debian.org/debian bookworm/main arm64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 17 http://deb.debian.org/debian bookworm/main arm64 libtool all 2.4.7-5 [517 kB] Get: 18 http://deb.debian.org/debian bookworm/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian bookworm/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian bookworm/main arm64 libsub-override-perl all 0.09-4 [9304 B] Get: 21 http://deb.debian.org/debian bookworm/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 22 http://deb.debian.org/debian bookworm/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 23 http://deb.debian.org/debian bookworm/main arm64 libelf1 arm64 0.188-2.1 [173 kB] Get: 24 http://deb.debian.org/debian bookworm/main arm64 dwz arm64 0.15-1 [101 kB] Get: 25 http://deb.debian.org/debian bookworm/main arm64 libicu72 arm64 72.1-3 [9204 kB] Get: 26 http://deb.debian.org/debian bookworm/main arm64 libxml2 arm64 2.9.14+dfsg-1.2 [620 kB] Get: 27 http://deb.debian.org/debian bookworm/main arm64 gettext arm64 0.21-12 [1248 kB] Get: 28 http://deb.debian.org/debian bookworm/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian bookworm/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian bookworm/main arm64 debhelper all 13.11.4 [942 kB] Fetched 18.3 MB in 1s (35.2 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 ... 19616 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.44-3_arm64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../02-libmagic1_1%3a5.44-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.44-3_arm64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-12_arm64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.22.4-10_arm64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.38.1-5+b1_arm64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.7-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.11.2-2_arm64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-3_arm64.deb ... Unpacking m4 (1.4.19-3) ... 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_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... 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_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... 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 libelf1:arm64. Preparing to unpack .../22-libelf1_0.188-2.1_arm64.deb ... Unpacking libelf1:arm64 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1_arm64.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../24-libicu72_72.1-3_arm64.deb ... Unpacking libicu72:arm64 (72.1-3) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../25-libxml2_2.9.14+dfsg-1.2_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.2) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.21-12_arm64.deb ... Unpacking gettext (0.21-12) ... 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_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Setting up libpipeline1:arm64 (1.5.7-1) ... Setting up libicu72:arm64 (72.1-3) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libmagic1:arm64 (1:5.44-3) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-12) ... Setting up autoconf (2.71-3) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libelf1:arm64 (0.188-2.1) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.11.4) ... Processing triggers for libc-bin (2.36-9) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/skewer-0.2.2/ && 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 > ../skewer_0.2.2-6_source.changes dpkg-buildpackage: info: source package skewer dpkg-buildpackage: info: source version 0.2.2-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j8 clean make[1]: Entering directory '/build/skewer-0.2.2' rm -rf src/main.o src/parameter.o src/matrix.o src/fastq.o skewer make[1]: Leaving directory '/build/skewer-0.2.2' dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/skewer.substvars debian/files rm -fr -- debian/skewer/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j8 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/skewer-0.2.2' g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/skewer-0.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -c src/main.cpp -o src/main.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/skewer-0.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -c src/parameter.cpp -o src/parameter.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/skewer-0.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -c src/matrix.cpp -o src/matrix.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/skewer-0.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -c src/fastq.cpp -o src/fastq.o src/fastq.cpp: In function 'int64 gzsize(const char*)': src/fastq.cpp:219:30: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 219 | fread(buffer, 1, 4, fp); | ~~~~~^~~~~~~~~~~~~~~~~~ src/main.cpp: In function 'void cStats::printTime(const char*, FILE*, int)': src/main.cpp:501:62: warning: '%d' directive writing between 1 and 11 bytes into a region of size between 0 and 12 [-Wformat-overflow=] 501 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d", | ^~ In member function 'char* cStats::timeStamp()', inlined from 'void cStats::printTime(const char*, FILE*, int)' at src/main.cpp:511:18: src/main.cpp:501:33: note: directive argument in the range [-2147481748, 2147483647] 501 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:906, from src/main.cpp:32: In function 'int sprintf(char*, const char*, ...)', inlined from 'char* cStats::timeStamp()' at src/main.cpp:501:10, inlined from 'void cStats::printTime(const char*, FILE*, int)' at src/main.cpp:511:18: /usr/include/aarch64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 16 and 67 bytes into a destination of size 26 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/skewer-0.2.2=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -Wl,-z,relro -Wl,-z,now -pthread src/main.o src/parameter.o src/matrix.o src/fastq.o -o skewer make[1]: Leaving directory '/build/skewer-0.2.2' dh_auto_test rm -fr -- /tmp/dh-xdg-rundir-JheUu94f create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/skewer.substvars rm -fr -- debian/.debhelper/generated/skewer/ debian/skewer/ debian/tmp/ dh_install install -m0755 -d debian/skewer/usr/bin cp --reflink=auto -a ./skewer debian/skewer/usr/bin/ dh_installdocs install -m0755 -d debian/skewer/usr/share/doc/skewer install -m0755 -d debian/skewer/usr/share/doc/skewer cp --reflink=auto -a ./README.md debian/skewer/usr/share/doc/skewer cp --reflink=auto -a ./debian/README.test debian/skewer/usr/share/doc/skewer cp --reflink=auto -a ./debian/tests/run-unit-test debian/skewer/usr/share/doc/skewer cp --reflink=auto -a ./debian/tests/get-test-data debian/skewer/usr/share/doc/skewer chmod -R u\+rw,go=rX debian/skewer/usr/share/doc install -p -m0644 debian/copyright debian/skewer/usr/share/doc/skewer/copyright dh_installchangelogs install -m0755 -d debian/skewer/usr/share/doc/skewer install -p -m0644 debian/.debhelper/generated/skewer/dh_installchangelogs.dch.trimmed debian/skewer/usr/share/doc/skewer/changelog.Debian dh_installexamples install -m0755 -d debian/skewer/usr/share/doc/skewer/examples cp --reflink=auto -a ./debian/tests/data/adapters.fa debian/skewer/usr/share/doc/skewer/examples cp --reflink=auto -a ./debian/tests/data/data.fastq.gz debian/skewer/usr/share/doc/skewer/examples dh_perl dh_link dh_strip_nondeterminism Using 1635691247 as canonical time Normalizing debian/skewer/usr/share/doc/skewer/examples/data.fastq.gz using File::StripNondeterminism::handlers::gzip dh_compress cd debian/skewer chmod a-x usr/share/doc/skewer/changelog.Debian gzip -9nf usr/share/doc/skewer/changelog.Debian cd '/build/skewer-0.2.2' dh_fixperms find debian/skewer ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/skewer/usr/share/doc -type f -a -true -a ! -regex 'debian/skewer/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/skewer/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/skewer -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/skewer/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing dh_dwz -a dwz -- debian/skewer/usr/bin/skewer dh_strip -a install -m0755 -d debian/.debhelper/skewer/dbgsym-root/usr/lib/debug/.build-id/96 objcopy --only-keep-debug --compress-debug-sections debian/skewer/usr/bin/skewer debian/.debhelper/skewer/dbgsym-root/usr/lib/debug/.build-id/96/2c535ba4e54b229e5d2e19f1df3549d6adfae1.debug chmod 0644 -- debian/.debhelper/skewer/dbgsym-root/usr/lib/debug/.build-id/96/2c535ba4e54b229e5d2e19f1df3549d6adfae1.debug strip --remove-section=.comment --remove-section=.note debian/skewer/usr/bin/skewer objcopy --add-gnu-debuglink debian/.debhelper/skewer/dbgsym-root/usr/lib/debug/.build-id/96/2c535ba4e54b229e5d2e19f1df3549d6adfae1.debug debian/skewer/usr/bin/skewer install -m0755 -d debian/.debhelper/skewer/dbgsym-root/usr/share/doc ln -s skewer debian/.debhelper/skewer/dbgsym-root/usr/share/doc/skewer-dbgsym install -m0755 -d debian/.debhelper/skewer dh_makeshlibs -a rm -f debian/skewer/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/skewer/DEBIAN dpkg-shlibdeps -Tdebian/skewer.substvars debian/skewer/usr/bin/skewer dh_installdeb install -m0755 -d debian/skewer/DEBIAN dh_gencontrol install -m0755 -d debian/skewer/DEBIAN echo misc:Depends= >> debian/skewer.substvars echo misc:Pre-Depends= >> debian/skewer.substvars install -m0755 -d debian/.debhelper/skewer/dbgsym-root/DEBIAN dpkg-gencontrol -pskewer -ldebian/changelog -Tdebian/skewer.substvars -Pdebian/.debhelper/skewer/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -UBuilt-Using -DAuto-Built-Package=debug-symbols -UProtected -DPackage=skewer-dbgsym "-DDepends=skewer (= \${binary:Version})" "-DDescription=debug symbols for skewer" -DBuild-Ids=962c535ba4e54b229e5d2e19f1df3549d6adfae1 -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/skewer/dbgsym-root/DEBIAN/control dpkg-gencontrol -pskewer -ldebian/changelog -Tdebian/skewer.substvars -Pdebian/skewer chmod 0644 -- debian/skewer/DEBIAN/control dh_md5sums install -m0755 -d debian/skewer/DEBIAN cd debian/skewer >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/skewer/DEBIAN/md5sums install -m0755 -d debian/.debhelper/skewer/dbgsym-root/DEBIAN cd debian/.debhelper/skewer/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/skewer/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/skewer .. dpkg-deb --root-owner-group --build debian/.debhelper/skewer/dbgsym-root .. dpkg-deb: building package 'skewer' in '../skewer_0.2.2-6_arm64.deb'. dpkg-deb: building package 'skewer-dbgsym' in '../skewer-dbgsym_0.2.2-6_arm64.deb'. dpkg-genbuildinfo --build=binary -O../skewer_0.2.2-6_arm64.buildinfo dpkg-genchanges --build=binary -O../skewer_0.2.2-6_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/27324 and its subdirectories I: Current time: Sat May 25 09:28:48 -12 2024 I: pbuilder-time-stamp: 1716672528 Sun Apr 23 15:05:51 UTC 2023 I: 1st build successful. Starting 2nd build on remote node codethink16-arm64.debian.net. Sun Apr 23 15:05:51 UTC 2023 I: Preparing to do remote build '2' on codethink16-arm64.debian.net. Sun Apr 23 15:06:43 UTC 2023 I: Deleting $TMPDIR on codethink16-arm64.debian.net. Sun Apr 23 15:06:43 UTC 2023 I: skewer_0.2.2-6_arm64.changes: Format: 1.8 Date: Sun, 31 Oct 2021 20:10:47 +0530 Source: skewer Binary: skewer skewer-dbgsym Architecture: arm64 Version: 0.2.2-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: skewer - post-processing of high-throughput DNA sequence reads Closes: 984334 Changes: skewer (0.2.2-6) unstable; urgency=medium . * Team upload. * Add patch to fix FTBFS with gcc-11 (Closes: #984334) Checksums-Sha1: e9071fdddfcc14cd07891211031874ab1b72dff5 583972 skewer-dbgsym_0.2.2-6_arm64.deb d9b254d40efc10644de3155f56106b23c070bab4 5105 skewer_0.2.2-6_arm64.buildinfo e40092a7914b46b900682a549645e24c06116bb3 77956 skewer_0.2.2-6_arm64.deb Checksums-Sha256: e2768175eaa7f94ad080ca1a05e16f83b822d3991f957eac71292103c4edbc86 583972 skewer-dbgsym_0.2.2-6_arm64.deb 1c4f377f2e57ec4913f9d6638fba2cba9a893c963183603e11dd5597752e5380 5105 skewer_0.2.2-6_arm64.buildinfo 92e6da9a00dc9c25c2eea47b981c708038d6bf36856a433aa98e87ddcbd5a224 77956 skewer_0.2.2-6_arm64.deb Files: f1465a6fd8dc7336dbd320f93fc275c0 583972 debug optional skewer-dbgsym_0.2.2-6_arm64.deb 340906e77d05e14dd65ce70e1c28e734 5105 science optional skewer_0.2.2-6_arm64.buildinfo 12814389705604bfa67d9d97bf45f8d3 77956 science optional skewer_0.2.2-6_arm64.deb Sun Apr 23 15:06:47 UTC 2023 I: diffoscope 241 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.y1SeuWcE/skewer_0.2.2-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.y1SeuWcE/skewer_0.2.2-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.y1SeuWcE/skewer_0.2.2-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.y1SeuWcE/b1/skewer_0.2.2-6_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.y1SeuWcE/b2/skewer_0.2.2-6_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 2.667s) 2.667s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.198s) 0.198s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Sun Apr 23 15:06:51 UTC 2023 I: diffoscope 241 found no differences in the changes files, and a .buildinfo file also exists. Sun Apr 23 15:06:51 UTC 2023 I: skewer from bookworm built successfully and reproducibly on arm64. Sun Apr 23 15:06:54 UTC 2023 I: Submitting .buildinfo files to external archives: Sun Apr 23 15:06:54 UTC 2023 I: Submitting 8.0K b1/skewer_0.2.2-6_arm64.buildinfo.asc Sun Apr 23 15:06:56 UTC 2023 I: Submitting 8.0K b2/skewer_0.2.2-6_arm64.buildinfo.asc Sun Apr 23 15:06:57 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Apr 23 15:06:57 UTC 2023 I: Done submitting .buildinfo files. Sun Apr 23 15:06:57 UTC 2023 I: Removing signed skewer_0.2.2-6_arm64.buildinfo.asc files: removed './b1/skewer_0.2.2-6_arm64.buildinfo.asc' removed './b2/skewer_0.2.2-6_arm64.buildinfo.asc'