Wed May 1 14:31:28 UTC 2024 I: starting to build chip-seq/trixie/arm64 on jenkins on '2024-05-01 14:31' Wed May 1 14:31:28 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_23/39285/console.log Wed May 1 14:31:28 UTC 2024 I: Downloading source for trixie/chip-seq=1.5.5-3 --2024-05-01 14:31:28-- http://deb.debian.org/debian/pool/main/c/chip-seq/chip-seq_1.5.5-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2020 (2.0K) [text/prs.lines.tag] Saving to: ‘chip-seq_1.5.5-3.dsc’ 0K . 100% 294M=0s 2024-05-01 14:31:28 (294 MB/s) - ‘chip-seq_1.5.5-3.dsc’ saved [2020/2020] Wed May 1 14:31:28 UTC 2024 I: chip-seq_1.5.5-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: chip-seq Binary: chip-seq, chip-seq-data Architecture: any all Version: 1.5.5-3 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://ccg.epfl.ch//chipseq Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/chip-seq Vcs-Git: https://salsa.debian.org/med-team/chip-seq.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 12) Package-List: chip-seq deb science optional arch=any chip-seq-data deb science optional arch=all Checksums-Sha1: c1d0fe6c413dbfcfc248a9ed2f49838a4b1384ac 5257567 chip-seq_1.5.5.orig.tar.gz 08d2558d0740ecc3cf754e4effad0821503c13fc 8840 chip-seq_1.5.5-3.debian.tar.xz Checksums-Sha256: ce432340e879a629001ecc4c14886e974ec3caea1b723e41f1a7a1a431a2a035 5257567 chip-seq_1.5.5.orig.tar.gz 654d5dadedc5c1fa9e46f65a6ffdc1fa1571715e80f4c1b6e5908a63047e20b1 8840 chip-seq_1.5.5-3.debian.tar.xz Files: 4e08c0558e2304415c766fa0bd3cbebd 5257567 chip-seq_1.5.5.orig.tar.gz 1c60740cc4de88131a34ce223804e7d5 8840 chip-seq_1.5.5-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl6AfK0RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtH9pw//Q+k06DReYj+ySxxsnc8PjyhPAOXtBVJQ Wfl8dGzJBxSDbhoVk8D3U2kPnNkZ93NxJW04YE1VqyzHxWwAYRfLDd/0bR+rTnCy G72eBesSbwHq3IA2UA/aSaLJYhxHNBapKRZE4ecHRCkUqxEME3qRRhDK6t+YBzhW kFrKLcJ+E6urKBUZtVjJuvPxhVNkFf6yFsnblmXe6rSr6NmM6iDUe83yM474vL0s nabkrmIV79lSVnUKzJfmnDP9/4jlgJDiCYk6Zf4SsliTualE2QoWxHVemBODz74m BM6XEzVco47aUHrwgPIQzE1CJaPH4fbm5yfPZrIue4JjnBBCbZPjSALzi882+I0G qzE4GV7Xh+wByeN+H8BNnw3q7v1Shlhb6+rTkPHiA5Vu4oCfDuohdYGrqpyv4RM8 tR+E+MEHsZNxATRFT9Q/yK8tmhZLkwsruj1nEjTTGMK+1HSXERpkOHYw2uDh6BWj 2+MaQdMPgrpoWcf3KZNH6fjzxE4NiuEmVpnB50Y4SAnO7qiOw6sa6tEvJIFxNsOu RvKXzfqJ1kp9y60rugsFZA4xBuVAevhhNMADknkWL9jj5UWrJU7O4c+dtqcOhfZI FfMUFJY+A6AX7XdeaiOqvGCShFZ1HoxLKzxZjcQXfjOTf34D24pcOabTGTguQaJH AeXBodqO+88= =qQRt -----END PGP SIGNATURE----- Wed May 1 14:31:28 UTC 2024 I: Checking whether the package is not for us Wed May 1 14:31:28 UTC 2024 I: Starting 1st build on remote node codethink03-arm64.debian.net. Wed May 1 14:31:28 UTC 2024 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Wed May 1 14:32:28 UTC 2024 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jun 3 08:54:30 -12 2025 I: pbuilder-time-stamp: 1748984070 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 [chip-seq_1.5.5-3.dsc] I: copying [./chip-seq_1.5.5.orig.tar.gz] I: copying [./chip-seq_1.5.5-3.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Mar 29 10:47:09 2020 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./chip-seq_1.5.5-3.dsc: no acceptable signature found dpkg-source: info: extracting chip-seq in chip-seq-1.5.5 dpkg-source: info: unpacking chip-seq_1.5.5.orig.tar.gz dpkg-source: info: unpacking chip-seq_1.5.5-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_makefile.patch dpkg-source: info: applying data_location.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2541825/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='329dc5524e044163819d22c234d7ef94' 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='2541825' 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.ZYoygAnB/pbuilderrc_jhmd --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.ZYoygAnB/b1 --logfile b1/build.log chip-seq_1.5.5-3.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.1.0-20-cloud-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 24 13:38 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2541825/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 (= 12) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19941 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 (= 12); 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} 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} 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 18.6 MB of archives. After unpacking 75.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-3+b1 [1126 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.39.3-6 [90.0 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.12.0-3 [1385 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.21-14 [496 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 23 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b3 [624 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.15.3 [901 kB] Fetched 18.6 MB in 0s (168 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 ... 19941 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_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_arm64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_arm64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-3+b1_arm64.deb ... Unpacking groff-base (1.23.0-3+b1) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.39.3-6_arm64.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.7-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.0-3_arm64.deb ... Unpacking man-db (2.12.0-3) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_arm64.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:arm64. Preparing to unpack .../22-libelf1t64_0.191-1+b1_arm64.deb ... Unpacking libelf1t64:arm64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../24-libicu72_72.1-4+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-4+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../25-libxml2_2.9.14+dfsg-1.3+b3_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.21-14+b1_arm64.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) ... Setting up libpipeline1:arm64 (1.5.7-2) ... Setting up libicu72:arm64 (72.1-4+b1) ... Setting up bsdextrautils (2.39.3-6) ... 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:arm64 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:arm64 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:arm64 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up libxml2:arm64 (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 intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-3+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.15.3) ... Processing triggers for libc-bin (2.37-18) ... 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/chip-seq-1.5.5/ && 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 > ../chip-seq_1.5.5-3_source.changes dpkg-buildpackage: info: source package chip-seq dpkg-buildpackage: info: source version 1.5.5-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j12 clean make[1]: Entering directory '/build/reproducible-path/chip-seq-1.5.5' rm -rf chipcor chipextract chippart chippeak chipcenter chipscore tools/compactsga tools/countsga tools/featreplace tools/filter_counts tools/bed2sga tools/bed2bed_display tools/sga2bed tools/sga2wig *.o *~ make[1]: Leaving directory '/build/reproducible-path/chip-seq-1.5.5' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j12 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/chip-seq-1.5.5' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -o chipcor chipcor.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -o chipextract chipextract.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -o chippart chippart.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o hashtable.o hashtable.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -o chipscore chipscore.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -o tools/compactsga tools/compactsga.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -o tools/countsga tools/countsga.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -o tools/featreplace tools/featreplace.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/chip-seq-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -std=gnu99 -W -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -o tools/filter_counts tools/filter_counts.c hashtable.c: In function 'MurmurHash3_x86_32': hashtable.c:539:14: warning: this statement may fall through [-Wimplicit-fallthrough=] 539 | case 3: k1 ^= tail[2] << 16; | ~~~^~~~~~~~~~~~~~~~ hashtable.c:540:3: note: here 540 | case 2: k1 ^= tail[1] << 8; | ^~~~ hashtable.c:540:14: warning: this statement may fall through [-Wimplicit-fallthrough=] 540 | case 2: k1 ^= tail[1] << 8; | ~~~^~~~~~~~~~~~~~~ hashtable.c:541:3: note: here 541 | case 1: k1 ^= tail[0]; | ^~~~ gcc -Wl,-z,relro -O3 -std=gnu99 -fPIC -lm -o chippeak chippeak.c hashtable.o gcc -Wl,-z,relro -O3 -std=gnu99 -fPIC -lm -o chipcenter chipcenter.c hashtable.o gcc -o tools/bed2sga tools/bed2sga.c hashtable.o -Wl,-z,relro -O3 -std=gnu99 -fPIC -lm gcc -o tools/bed2bed_display tools/bed2bed_display.c hashtable.o -Wl,-z,relro -O3 -std=gnu99 -fPIC -lm gcc -o tools/sga2bed tools/sga2bed.c hashtable.o -Wl,-z,relro -O3 -std=gnu99 -fPIC -lm gcc -o tools/sga2wig tools/sga2wig.c hashtable.o -Wl,-z,relro -O3 -std=gnu99 -fPIC -lm tools/bed2bed_display.c: In function 'main': tools/bed2bed_display.c:564:7: warning: '__builtin_memcpy' writing 6 bytes into a region of size 5 [-Wstringop-overflow=] 564 | strcpy(options.visibility, "dense"); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tools/bed2bed_display.c:557:31: note: destination object of size 5 allocated by 'malloc' 557 | if ((options.visibility = malloc(5 * sizeof(char))) == NULL) { | ^~~~~~~~~~~~~~~~~~~~~~~~ make[1]: Leaving directory '/build/reproducible-path/chip-seq-1.5.5' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j12 install DESTDIR=/build/reproducible-path/chip-seq-1.5.5/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/chip-seq-1.5.5' mkdir -p /build/reproducible-path/chip-seq-1.5.5/debian/tmp/usr/bin mv chipcor chipextract chippart chippeak chipcenter chipscore tools/compactsga tools/countsga tools/featreplace tools/filter_counts tools/bed2sga tools/bed2bed_display tools/sga2bed tools/sga2wig /build/reproducible-path/chip-seq-1.5.5/debian/tmp/usr/bin cp -p tools/check_bed.pl tools/chr_replace_sga.pl tools/eland2sga.pl tools/fps2sga.pl tools/gff2sga.pl tools/partit2bed.pl tools/partit2gff.pl tools/sga2fps.pl tools/sga2gff.pl /build/reproducible-path/chip-seq-1.5.5/debian/tmp/usr/bin make[1]: Leaving directory '/build/reproducible-path/chip-seq-1.5.5' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/chip-seq-1.5.5' dh_install for perlscript in `grep -lR '#!/usr/local/bin/perl' debian/*/usr` ; do \ sed -i '1s+#!/usr/local/bin/perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/build/reproducible-path/chip-seq-1.5.5' dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/chip-seq-1.5.5' dh_installman --language=C make[1]: Leaving directory '/build/reproducible-path/chip-seq-1.5.5' dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms-indep make[1]: Entering directory '/build/reproducible-path/chip-seq-1.5.5' dh_fixperms -i find debian/chip-seq-data/usr/share/chip-seq/ -type f -exec chmod -x \{\} \; make[1]: Leaving directory '/build/reproducible-path/chip-seq-1.5.5' dh_fixperms -Nchip-seq-data dh_missing dh_dwz dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package chip-seq: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package chip-seq: substitution variable ${perl:Depends} unused, but is defined dh_md5sums dh_builddeb dpkg-deb: building package 'chip-seq-dbgsym' in '../chip-seq-dbgsym_1.5.5-3_arm64.deb'. dpkg-deb: building package 'chip-seq-data' in '../chip-seq-data_1.5.5-3_all.deb'. dpkg-deb: building package 'chip-seq' in '../chip-seq_1.5.5-3_arm64.deb'. dpkg-genbuildinfo --build=binary -O../chip-seq_1.5.5-3_arm64.buildinfo dpkg-genchanges --build=binary -O../chip-seq_1.5.5-3_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/2541825 and its subdirectories I: Current time: Tue Jun 3 08:55:26 -12 2025 I: pbuilder-time-stamp: 1748984126 Wed May 1 14:32:29 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Wed May 1 14:32:29 UTC 2024 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Wed May 1 14:34:11 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Wed May 1 14:34:12 UTC 2024 I: chip-seq_1.5.5-3_arm64.changes: Format: 1.8 Date: Sun, 29 Mar 2020 12:44:42 +0200 Source: chip-seq Binary: chip-seq chip-seq-data chip-seq-dbgsym Architecture: all arm64 Version: 1.5.5-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: chip-seq - tools performing common ChIP-Seq data analysis tasks chip-seq-data - tools performing common ChIP-Seq data analysis tasks (data) Changes: chip-seq (1.5.5-3) unstable; urgency=medium . * Fix arch only build Checksums-Sha1: 747b5125f5190f61437a00fdf2be5ea1b4616363 3003644 chip-seq-data_1.5.5-3_all.deb 035743903702e769393db0a31b3e28a80fda3f78 112340 chip-seq-dbgsym_1.5.5-3_arm64.deb 8effc22829482b105ad0fecfeb96f935f18350bb 5380 chip-seq_1.5.5-3_arm64.buildinfo 74a4b577a0707ce4342fe28b08d3915575932cf0 97744 chip-seq_1.5.5-3_arm64.deb Checksums-Sha256: f447726c1aeb4e7e74ab00ab9d244cb7e881555aae7a761538fab52d013383ff 3003644 chip-seq-data_1.5.5-3_all.deb dccefe86b9ee430746f46f3e845a1eeb6af9b8aa910724253352a28c6fc60034 112340 chip-seq-dbgsym_1.5.5-3_arm64.deb 81d8405481a6caeeadc58a2a473f1e32b33b6c912c895dd6b77dd3dee0fed63e 5380 chip-seq_1.5.5-3_arm64.buildinfo 62cef9e764159ca1619d0ca7d342ac9271d92c8054c0c8f897f9b88b4c84d477 97744 chip-seq_1.5.5-3_arm64.deb Files: ac9e1ca4ebdfa04beacaad8180d17898 3003644 science optional chip-seq-data_1.5.5-3_all.deb 783761c3304c767be053fa21b8a8cef7 112340 debug optional chip-seq-dbgsym_1.5.5-3_arm64.deb c7cbd30cd30cbc57565c0718ab08d475 5380 science optional chip-seq_1.5.5-3_arm64.buildinfo 4e31f83aaefde99f5ad4d2f2d01848b6 97744 science optional chip-seq_1.5.5-3_arm64.deb Wed May 1 14:34:13 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_23-39285.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ZYoygAnB/chip-seq_1.5.5-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ZYoygAnB/chip-seq_1.5.5-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ZYoygAnB/chip-seq_1.5.5-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ZYoygAnB/b1/chip-seq_1.5.5-3_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ZYoygAnB/b2/chip-seq_1.5.5-3_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: 0.367s) 0.367s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.049s) 0.049s 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: 702ms CPU time consumed: 700ms Wed May 1 14:34:14 UTC 2024 I: diffoscope 265 found no differences in the changes files, and a .buildinfo file also exists. Wed May 1 14:34:14 UTC 2024 I: chip-seq from trixie built successfully and reproducibly on arm64. Wed May 1 14:34:15 UTC 2024 I: Submitting .buildinfo files to external archives: Wed May 1 14:34:15 UTC 2024 I: Submitting 8.0K b1/chip-seq_1.5.5-3_arm64.buildinfo.asc Wed May 1 14:34:16 UTC 2024 I: Submitting 8.0K b2/chip-seq_1.5.5-3_arm64.buildinfo.asc Wed May 1 14:34:16 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed May 1 14:34:16 UTC 2024 I: Done submitting .buildinfo files. Wed May 1 14:34:17 UTC 2024 I: Removing signed chip-seq_1.5.5-3_arm64.buildinfo.asc files: removed './b1/chip-seq_1.5.5-3_arm64.buildinfo.asc' removed './b2/chip-seq_1.5.5-3_arm64.buildinfo.asc'