Sun Jul 19 02:29:53 UTC 2020 I: starting to build primer3/buster/armhf on jenkins on '2020-07-19 02:29' Sun Jul 19 02:29:53 UTC 2020 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_17/1985/console.log Sun Jul 19 02:29:53 UTC 2020 I: Downloading source for buster/primer3=2.4.0-2 --2020-07-19 02:29:54-- http://deb.debian.org/debian/pool/main/p/primer3/primer3_2.4.0-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2117 (2.1K) Saving to: ‘primer3_2.4.0-2.dsc’ 0K .. 100% 124M=0s 2020-07-19 02:29:54 (124 MB/s) - ‘primer3_2.4.0-2.dsc’ saved [2117/2117] Sun Jul 19 02:29:54 UTC 2020 I: primer3_2.4.0-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: primer3 Binary: primer3, primer3-examples Architecture: any all Version: 2.4.0-2 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Charles Plessy , Andreas Tille Homepage: http://primer3.sourceforge.net Standards-Version: 4.1.4 Vcs-Browser: https://salsa.debian.org/med-team/primer3 Vcs-Git: https://salsa.debian.org/med-team/primer3.git Testsuite: autopkgtest Testsuite-Triggers: valgrind Build-Depends: debhelper (>= 11~) Package-List: primer3 deb science optional arch=any primer3-examples deb science optional arch=all Checksums-Sha1: 7625922ff20d8f34d418933ac462b267cb39c0b5 31746780 primer3_2.4.0.orig.tar.gz 9d7f7874ef42796bd45181a610ad4d2d9193ef02 12060 primer3_2.4.0-2.debian.tar.xz Checksums-Sha256: 6d537640c86e2b4656ae77f75b6ad4478fd0ca43985a56cce531fb9fc0431c47 31746780 primer3_2.4.0.orig.tar.gz 96247e4223393e0056a8886209b1bb37abfa7dc7fb00eca4e3e695daf62dd71e 12060 primer3_2.4.0-2.debian.tar.xz Files: aed6546bdfb60652cd7eba8d51eae8cc 31746780 primer3_2.4.0.orig.tar.gz 94f8c7a3847e87211ecac64492ed834f 12060 primer3_2.4.0-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJCBAEBCgAsFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlsNiucOHHRpbGxlYUBy a2kuZGUACgkQV4oElNHGRtEi/w//SwZpT2U3eZJJi87BiAG1fh71WNh8qk7A7Wzj FqCTP47HtSyNIjLkr8iYWf5Hzo25IcLTiVAEdOJ/sDFBb+yQGky3WaFOhHil+5tS plr3y/v/wHih8QiducJfKcJIptRwjv1nVx2nhbNAFuT6Z00XBwfQdtUieMndKAh1 CQbKe5OcVDrrlm4/7Buu58JmTuM+V6M/Q4yuioBebodhi/tlavunEHdpt4U/rvbT C6BupdG8qampSb1Uo+os4lMpGSGnX1tEVnz6+Gv8fyqj/f2volFiI9arKdufepp9 Z8CA13Xkuv8ahbfQgZUbnsdR63zISgtMUlLdD/cnSwOvz0hL8/ZJvA1Vq/Krg+8u i8p0Q5BsFxqRCVBaIa0EgQ6RZoOH21rT3e3iSsjCu6n25gef1xyYRml8RBVO99Sh tYGBufidvWDlAT0eT4ubymfXr0lNr/FS8gH9+8vi+zcmPMHP1iFXbQpC6gM/X7Zr mgjgbnZy8yoMBbhfb6t+FuTMcoJ/O2inLiis+V95q/C49yhmpsojnSs+FfJGNLhg s/ROZzW7rsXz9YyAxBttuEidaUfQayl585Z6whCmbfNKpPIPBxEClXewUuZhcjyP tRGtS1IGy0TzFibWjmDyp39GO7W+YJUqKt+aKexqFWF059wp+SFW/G2RNNO0tl/0 O6/2cqs= =mo71 -----END PGP SIGNATURE----- Sun Jul 19 02:29:54 UTC 2020 I: Checking whether the package is not for us Sun Jul 19 02:29:54 UTC 2020 I: Starting 1st build on remote node jtx1b-armhf-rb.debian.net. Sun Jul 19 02:29:54 UTC 2020 I: Preparing to do remote build '1' on jtx1b-armhf-rb.debian.net. Sun Jul 19 03:08:04 UTC 2020 I: Deleting $TMPDIR on jtx1b-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Jul 18 14:30:04 -12 2020 I: pbuilder-time-stamp: 1595125804 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration 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 [primer3_2.4.0-2.dsc] I: copying [./primer3_2.4.0.orig.tar.gz] I: copying [./primer3_2.4.0-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Tue May 29 05:16:23 2018 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tillea@rki.de" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./primer3_2.4.0-2.dsc dpkg-source: info: extracting primer3 in primer3-2.4.0 dpkg-source: info: unpacking primer3_2.4.0.orig.tar.gz dpkg-source: info: unpacking primer3_2.4.0-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying primer_thermodynamic_parameters_path_2_etc.patch dpkg-source: info: applying gcc-7.patch dpkg-source: info: applying p3test_fix_exit_status.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/16493/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='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3' DISTRIBUTION='' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='2c68124470e84beba759d6b02cf92a13' 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='16493' 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/tmp.am2qpoPH0d/pbuilderrc_CwSL --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.am2qpoPH0d/b1 --logfile b1/build.log primer3_2.4.0-2.dsc' SUDO_GID='114' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:8000/' I: uname -a Linux jtx1b 4.19.0-9-arm64 #1 SMP Debian 4.19.118-2+deb10u1 (2020-06-07) aarch64 GNU/Linux I: ls -l /bin total 3328 -rwxr-xr-x 1 root root 767656 Apr 17 2019 bash -rwxr-xr-x 3 root root 26052 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 26052 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 9636 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 22432 Feb 28 2019 cat -rwxr-xr-x 1 root root 38868 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 38836 Feb 28 2019 chmod -rwxr-xr-x 1 root root 42972 Feb 28 2019 chown -rwxr-xr-x 1 root root 88376 Feb 28 2019 cp -rwxr-xr-x 1 root root 75516 Jan 17 2019 dash -rwxr-xr-x 1 root root 71648 Feb 28 2019 date -rwxr-xr-x 1 root root 51212 Feb 28 2019 dd -rwxr-xr-x 1 root root 55672 Feb 28 2019 df -rwxr-xr-x 1 root root 88444 Feb 28 2019 dir -rwxr-xr-x 1 root root 54872 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 22364 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 18260 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 47356 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 21980 Apr 22 07:38 fusermount -rwxr-xr-x 1 root root 124508 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 64232 Jan 5 2019 gzip -rwxr-xr-x 1 root root 13784 Sep 26 2018 hostname -rwxr-xr-x 1 root root 43044 Feb 28 2019 ln -rwxr-xr-x 1 root root 34932 Jul 26 2018 login -rwxr-xr-x 1 root root 88444 Feb 28 2019 ls -rwxr-xr-x 1 root root 67036 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 47168 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 43040 Feb 28 2019 mknod -rwxr-xr-x 1 root root 26552 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 26024 Jan 9 2019 more -rwsr-xr-x 1 root root 34268 Jan 9 2019 mount -rwxr-xr-x 1 root root 9688 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 84284 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 22416 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 26504 Feb 28 2019 readlink -rwxr-xr-x 1 root root 42968 Feb 28 2019 rm -rwxr-xr-x 1 root root 26496 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 14136 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jul 15 20:25 sh -> dash -rwxr-xr-x 1 root root 22384 Feb 28 2019 sleep -rwxr-xr-x 1 root root 51124 Feb 28 2019 stty -rwsr-xr-x 1 root root 42472 Jan 9 2019 su -rwxr-xr-x 1 root root 22392 Feb 28 2019 sync -rwxr-xr-x 1 root root 283324 Apr 23 2019 tar -rwxr-xr-x 1 root root 9808 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 63464 Feb 28 2019 touch -rwxr-xr-x 1 root root 18260 Feb 28 2019 true -rwxr-xr-x 1 root root 9636 Apr 22 07:38 ulockmgr_server -rwsr-xr-x 1 root root 21976 Jan 9 2019 umount -rwxr-xr-x 1 root root 22380 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 88444 Feb 28 2019 vdir -rwxr-xr-x 1 root root 21980 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/16493/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: armhf 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 (>= 11~) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 18932 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 (>= 11~); however: Package debhelper 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} bsdmainutils{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} libbsd0{a} libcroco3{a} libelf1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libicu63{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libpipeline1{a} libsigsegv2{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 libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 18.2 MB of archives. After unpacking 63.5 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main armhf libbsd0 armhf 0.9.1-2 [103 kB] Get: 2 http://deb.debian.org/debian buster/main armhf bsdmainutils armhf 11.1.2+b1 [186 kB] Get: 3 http://deb.debian.org/debian buster/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB] Get: 4 http://deb.debian.org/debian buster/main armhf groff-base armhf 1.22.4-3 [828 kB] Get: 5 http://deb.debian.org/debian buster/main armhf libpipeline1 armhf 1.5.1-2 [26.8 kB] Get: 6 http://deb.debian.org/debian buster/main armhf man-db armhf 2.8.5-2 [1240 kB] Get: 7 http://deb.debian.org/debian buster/main armhf sensible-utils all 0.0.12 [15.8 kB] Get: 8 http://deb.debian.org/debian buster/main armhf libmagic-mgc armhf 1:5.35-4+deb10u1 [242 kB] Get: 9 http://deb.debian.org/debian buster/main armhf libmagic1 armhf 1:5.35-4+deb10u1 [110 kB] Get: 10 http://deb.debian.org/debian buster/main armhf file armhf 1:5.35-4+deb10u1 [65.5 kB] Get: 11 http://deb.debian.org/debian buster/main armhf gettext-base armhf 0.19.8.1-9 [118 kB] Get: 12 http://deb.debian.org/debian buster/main armhf libsigsegv2 armhf 2.12-2 [32.1 kB] Get: 13 http://deb.debian.org/debian buster/main armhf m4 armhf 1.4.18-2 [190 kB] Get: 14 http://deb.debian.org/debian buster/main armhf autoconf all 2.69-11 [341 kB] Get: 15 http://deb.debian.org/debian buster/main armhf autotools-dev all 20180224.1 [77.0 kB] Get: 16 http://deb.debian.org/debian buster/main armhf automake all 1:1.16.1-4 [771 kB] Get: 17 http://deb.debian.org/debian buster/main armhf autopoint all 0.19.8.1-9 [434 kB] Get: 18 http://deb.debian.org/debian buster/main armhf libtool all 2.4.6-9 [547 kB] Get: 19 http://deb.debian.org/debian buster/main armhf dh-autoreconf all 19 [16.9 kB] Get: 20 http://deb.debian.org/debian buster/main armhf libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 21 http://deb.debian.org/debian buster/main armhf libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 22 http://deb.debian.org/debian buster/main armhf dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 23 http://deb.debian.org/debian buster/main armhf libelf1 armhf 0.176-1.1 [158 kB] Get: 24 http://deb.debian.org/debian buster/main armhf dwz armhf 0.12-3 [72.0 kB] Get: 25 http://deb.debian.org/debian buster/main armhf libglib2.0-0 armhf 2.58.3-2+deb10u2 [1101 kB] Get: 26 http://deb.debian.org/debian buster/main armhf libicu63 armhf 63.1-6+deb10u1 [8005 kB] Get: 27 http://deb.debian.org/debian buster/main armhf libxml2 armhf 2.9.4+dfsg1-7+b3 [595 kB] Get: 28 http://deb.debian.org/debian buster/main armhf libcroco3 armhf 0.6.12-3 [133 kB] Get: 29 http://deb.debian.org/debian buster/main armhf libncurses6 armhf 6.1+20181013-2+deb10u2 [79.8 kB] Get: 30 http://deb.debian.org/debian buster/main armhf gettext armhf 0.19.8.1-9 [1242 kB] Get: 31 http://deb.debian.org/debian buster/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 32 http://deb.debian.org/debian buster/main armhf po-debconf all 1.0.21 [248 kB] Get: 33 http://deb.debian.org/debian buster/main armhf debhelper all 12.1.1 [1016 kB] Fetched 18.2 MB in 2s (9561 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:armhf. (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 ... 18932 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_armhf.deb ... Unpacking libbsd0:armhf (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_armhf.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../02-libuchardet0_0.0.6-3_armhf.deb ... Unpacking libuchardet0:armhf (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_armhf.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../04-libpipeline1_1.5.1-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_armhf.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../06-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../07-libmagic-mgc_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../08-libmagic1_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking libmagic1:armhf (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../09-file_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../10-gettext-base_0.19.8.1-9_armhf.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:armhf. Preparing to unpack .../11-libsigsegv2_2.12-2_armhf.deb ... Unpacking libsigsegv2:armhf (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.18-2_armhf.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../13-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../14-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../15-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../16-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../21-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:armhf. Preparing to unpack .../22-libelf1_0.176-1.1_armhf.deb ... Unpacking libelf1:armhf (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.12-3_armhf.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:armhf. Preparing to unpack .../24-libglib2.0-0_2.58.3-2+deb10u2_armhf.deb ... Unpacking libglib2.0-0:armhf (2.58.3-2+deb10u2) ... Selecting previously unselected package libicu63:armhf. Preparing to unpack .../25-libicu63_63.1-6+deb10u1_armhf.deb ... Unpacking libicu63:armhf (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../26-libxml2_2.9.4+dfsg1-7+b3_armhf.deb ... Unpacking libxml2:armhf (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libcroco3:armhf. 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Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libcroco3:armhf (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gettext (0.19.8.1-9) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up po-debconf (1.0.21) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... 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 Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/primer3-2.4.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package primer3 dpkg-buildpackage: info: source version 2.4.0-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Liubov Chuprikova dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean dh clean --sourcedirectory=src dh_auto_clean -O--sourcedirectory=src cd src && make -j3 clean make[1]: Entering directory '/build/primer3-2.4.0/src' rm -f *.o primer3_core ntdpal ntthal oligotm long_seq_tm_test primer3_masker *~ libprimer3.a libdpal.a libthal.a liboligotm.a libmasker.a libprimer3.so.1.0.0 libdpal.a.so.1.0.0 libthal.a.so.1.0.0 liboligotm.so.1.2.0 libmasker.a.so.1.0.0 example.for example.rev example.int core ../*~ cd ../test/; make clean make[2]: Entering directory '/build/primer3-2.4.0/test' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. echo; echo; echo 'CLEAN UP TEST DIRECTORIES'; echo; echo; CLEAN UP TEST DIRECTORIES rm -rf primer_list_tmp/* rm -rf primer1_list_tmp/* rm -rf primer1_th_list_tmp/* rm -rf th-w-other-tasks_list_tmp/* rm -f primer_global_err/*.tmp primer_global_err/*.tmp2 primer_global_err/*.bak rm -f *.tmp *.bak *.tmp.err *~ rm -f hyb_probe_only.for hyb_probe_only.int rm -f right_only.for right_only.rev left_only.for rm -f pcr_primers_and_io.int pcr_primers_and_io.rev pcr_primers_and_io.for rm -f pcr_primers.rev pcr_primers.for rm -f pick_primer_list_and_file_flag_th_[1-4].for pick_primer_list_and_file_flag_th_[1-4].rev rm -f pick_primer_list_and_file_flag_th_[1-4].int rm -f syntax[0-1][0-9].for syntax[0-1][0-9].int syntax[0-1][0-9].rev rm -f oligotm.*.valg # valgrind output from oligotm_test.pl --valgrind rm -f ntdpal.*.valg # valgrind output from dpal_test.pl --valgrind rm -f ntthal.*.valg # valgrind output from thal_test.pl --valgrind rm -f masker.*.valg # valgrind output from thal_test.pl --valgrind rm -f oligotm.*.valg.* # valgrind output from oligotm_test.pl --valgrind rm -f ntdpal.*.valg.* # valgrind output from dpal_test.pl --valgrind rm -f ntthal.*.valg.* # valgrind output from thal_test.pl --valgrind rm -f masker.*.valg.* # valgrind output from masker_test.pl --valgrind rm -f *.vg */*.vg # valgrind output from p3test{,z}.pl --valgrind rm -f *.vg.core.* # core files from crashed valgrind test rm -f ./core # in case we crashed and left a core file make[2]: Leaving directory '/build/primer3-2.4.0/test' make[1]: Leaving directory '/build/primer3-2.4.0/src' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules build dh build --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src debian/rules override_dh_auto_build make[1]: Entering directory '/build/primer3-2.4.0' dh_auto_build -- 'CPP=$(CXX)' cd src && make -j3 "INSTALL=install --strip-program=true" CPP=\$\(CXX\) make[2]: Entering directory '/build/primer3-2.4.0/src' g++ -c -g -O2 -ffile-prefix-map=/build/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 primer3_boulder_main.c g++ -c -g -O2 -ffile-prefix-map=/build/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o format_output.o format_output.c g++ -c -g -O2 -ffile-prefix-map=/build/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o read_boulder.o read_boulder.c g++ -c -g -O2 -ffile-prefix-map=/build/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o print_boulder.o print_boulder.c g++ -c -g -O2 -ffile-prefix-map=/build/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 masker.c g++ -c -g -O2 -ffile-prefix-map=/build/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -Wno-deprecated -o libprimer3.o libprimer3.c g++ -c -g -O2 -ffile-prefix-map=/build/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o p3_seq_lib.o p3_seq_lib.c g++ -c -g -O2 -ffile-prefix-map=/build/primer3-2.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -D__USE_FIXED_PROTOTYPES__ -O2 -o dpal_primer.o dpal.c dpal.c: In function 'void print_align(const unsigned char*, const unsigned char*, int (*)[1600][3], int, int, const dpal_args*)': dpal.c:1036:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(i=j;i../primer3_2.4.0-2_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) 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/16493 and its subdirectories I: Current time: Sat Jul 18 15:07:07 -12 2020 I: pbuilder-time-stamp: 1595128027 Sun Jul 19 03:08:06 UTC 2020 I: 1st build successful. Starting 2nd build on remote node jtk1b-armhf-rb.debian.net. Sun Jul 19 03:08:06 UTC 2020 I: Preparing to do remote build '2' on jtk1b-armhf-rb.debian.net. Sun Jul 19 05:26:41 UTC 2020 I: Deleting $TMPDIR on jtk1b-armhf-rb.debian.net. Sun Jul 19 05:26:43 UTC 2020 I: primer3_2.4.0-2_armhf.changes: Format: 1.8 Date: Mon, 28 May 2018 13:44:30 +0000 Source: primer3 Binary: primer3 primer3-dbgsym primer3-examples Architecture: armhf all Version: 2.4.0-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Liubov Chuprikova Description: primer3 - tool to design flanking oligo nucleotides for DNA amplification primer3-examples - tool to design flanking oligo nucleotides for DNA amplification ( Closes: 890993 Changes: primer3 (2.4.0-2) unstable; urgency=medium . [ Liubov Chuprikova ] * Team upload. * Skip tests that fail on big endian Closes: #890993 * Added d/README.source with explanation why some tests are skipped * debian/patches/p3test_fix_exit_status.patch: Fix test to show correct exit status . [ Andreas Tille ] * Point Vcs fields to salsa.debian.org * Standards-Version: 4.1.4 Checksums-Sha1: b52a3ff35a5cf2e3cbcd27a2d46e5e6b1b7e7775 413052 primer3-dbgsym_2.4.0-2_armhf.deb 9eaf97c57f68aadd3853eac0c3363f70ed30edd9 30592460 primer3-examples_2.4.0-2_all.deb 8c33f633e2d1fa7b16b5ea8d85a22eb538c168ee 4766 primer3_2.4.0-2_armhf.buildinfo 1d4dfe5ad85076197c7c64af42bcb9aeb9559905 165084 primer3_2.4.0-2_armhf.deb Checksums-Sha256: 632aba57ddec6d3b060bd2aa2a70386912dd4dfe83c7bb8024c84e25b1defbbe 413052 primer3-dbgsym_2.4.0-2_armhf.deb dd8c58285aac949082d8708cebff4db1c54cabb25a4657c50f61e4ae1bf4ab86 30592460 primer3-examples_2.4.0-2_all.deb 0472c2e4e1dadceba13c7751d93d14768a7e8105677319574b70b52a6410148d 4766 primer3_2.4.0-2_armhf.buildinfo 66bc428342c9cf542cdc01d5c75c738e28352a027645dff6e97ac81366aecc04 165084 primer3_2.4.0-2_armhf.deb Files: a729e8224dc77d222a598dac82730c7c 413052 debug optional primer3-dbgsym_2.4.0-2_armhf.deb e2b2ced1da285d4653f97df47ef9800e 30592460 science optional primer3-examples_2.4.0-2_all.deb 35cc1be032cd2dd19a17f70f55acaf3b 4766 science optional primer3_2.4.0-2_armhf.buildinfo cde743512e03dba61a18d5b1b48cc5aa 165084 science optional primer3_2.4.0-2_armhf.deb Sun Jul 19 05:26:46 UTC 2020 I: diffoscope 152 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.am2qpoPH0d/primer3_2.4.0-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.am2qpoPH0d/primer3_2.4.0-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.am2qpoPH0d/primer3_2.4.0-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.am2qpoPH0d/b1/primer3_2.4.0-2_armhf.changes /srv/reproducible-results/rbuild-debian/tmp.am2qpoPH0d/b2/primer3_2.4.0-2_armhf.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: 1.021s) 1.021s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.761s) 0.760s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sun Jul 19 05:26:48 UTC 2020 I: diffoscope 152 found no differences in the changes files, and a .buildinfo file also exists. Sun Jul 19 05:26:48 UTC 2020 I: primer3 from buster built successfully and reproducibly on armhf. Sun Jul 19 05:26:49 UTC 2020 I: Submitting .buildinfo files to external archives: Sun Jul 19 05:26:49 UTC 2020 I: Submitting 8.0K b1/primer3_2.4.0-2_armhf.buildinfo.asc Sun Jul 19 05:26:51 UTC 2020 I: Submitting 8.0K b2/primer3_2.4.0-2_armhf.buildinfo.asc Sun Jul 19 05:26:52 UTC 2020 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Jul 19 05:26:52 UTC 2020 I: Done submitting .buildinfo files. Sun Jul 19 05:26:52 UTC 2020 I: Removing signed primer3_2.4.0-2_armhf.buildinfo.asc files: removed './b1/primer3_2.4.0-2_armhf.buildinfo.asc' removed './b2/primer3_2.4.0-2_armhf.buildinfo.asc'