Thu Aug 6 08:22:22 UTC 2020 I: starting to build clearcut/buster/armhf on jenkins on '2020-08-06 08:22' Thu Aug 6 08:22:22 UTC 2020 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_5/149/console.log Thu Aug 6 08:22:22 UTC 2020 I: Downloading source for buster/clearcut=1.0.9-3 --2020-08-06 08:22:22-- http://deb.debian.org/debian/pool/main/c/clearcut/clearcut_1.0.9-3.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1969 (1.9K) Saving to: ‘clearcut_1.0.9-3.dsc’ 0K . 100% 208M=0s 2020-08-06 08:22:22 (208 MB/s) - ‘clearcut_1.0.9-3.dsc’ saved [1969/1969] Thu Aug 6 08:22:22 UTC 2020 I: clearcut_1.0.9-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: clearcut Binary: clearcut Architecture: any Version: 1.0.9-3 Maintainer: Debian Med Packaging Team Uploaders: Tim Booth , Andreas Tille Homepage: http://bioinformatics.hungry.com/clearcut/ Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/med-team/clearcut Vcs-Git: https://salsa.debian.org/med-team/clearcut.git Build-Depends: debhelper (>= 11~) Package-List: clearcut deb science optional arch=any Checksums-Sha1: f6e1ffa2084bb97334cb765ff4229efaac142110 349838 clearcut_1.0.9.orig.tar.gz c201447fb415d328e591123a925972f18cee3822 4340 clearcut_1.0.9-3.debian.tar.xz Checksums-Sha256: b9d5a0d48af95d89fe0a8963123b9fc4fa25413cdadc9fcd28dce374173e3305 349838 clearcut_1.0.9.orig.tar.gz 60348e422c22b10245f4615a6f9e0eef47dfbbc2707e5de6ee524cd7b57832bf 4340 clearcut_1.0.9-3.debian.tar.xz Files: 03d0b443a2d4fd3482e6318c5ec2ccfd 349838 clearcut_1.0.9.orig.tar.gz 8a44bc3cda9a55a6d6413a0cd59c07a2 4340 clearcut_1.0.9-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlvJ4noRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFJPQ/+O0UnYJMLQPWM7MFXZ4zcGV24sJSXGG0g 5fqw6mMbDiMrmjQG3kpia8mRbqLlldBGzPoHYpM4WesLpdurVbdQNwzDt6s3yxOn 4AZpcp+qAvvAow89fWJj7x5TzyRDkLd8HfuR+pxBXqdoMjCiDLQZIHjylUSIMtuH uVlHO0EU4lKuIKNfOIjCWNLrpHdGagbikveKgy0nQ9QjfDM2wmDO2SYTIvqcy6UT jMbVjhTqo9ny1kMJigdrPYGsMZxZfzwWdaf/s2mMXs8iCZ70RysZ12oq58pe92D4 Ldr+pU9fQsI5GtxA6sTzXY7ndjoPP9v1+pwLt1Gue+GpIty910eckg5LN6W11KHg LFH8Vz5/hTYRl/ldcl33+lCS07byGA3+0DG1YlyjZvpThJhnWKRhmBLfKr6dmz8K TLjL8WSl7hsO0wuKy19+qGIrnI0KETLnok5n25D6F0hYK58NcAuEheHie65pCEW9 OUPg/k54UKGwl67k0K9Nqn4m+llsj7dm16pwdlS14MqAT42JguWJ/B/coldXIIyn R9vvRGmqz8RlE7Pzy1ldiPE4NvnuNgCCPlllU1hc3vvD4qadq839Bf1zxjLJiove eXOJqVUcI/kkQ7htpUZxPF6CfEIZFGiKG73g8jFggSaXlH6j+vmQfkTYs41+RuD5 KtjO9nW25kA= =cm6r -----END PGP SIGNATURE----- Thu Aug 6 08:22:22 UTC 2020 I: Checking whether the package is not for us Thu Aug 6 08:22:22 UTC 2020 I: Starting 1st build on remote node cbxi4a-armhf-rb.debian.net. Thu Aug 6 08:22:22 UTC 2020 I: Preparing to do remote build '1' on cbxi4a-armhf-rb.debian.net. Thu Aug 6 08:28:34 UTC 2020 I: Deleting $TMPDIR on cbxi4a-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Aug 5 20:22:32 -12 2020 I: pbuilder-time-stamp: 1596702152 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 [clearcut_1.0.9-3.dsc] I: copying [./clearcut_1.0.9.orig.tar.gz] I: copying [./clearcut_1.0.9-3.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 Fri Oct 19 01:56:10 2018 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./clearcut_1.0.9-3.dsc dpkg-source: info: extracting clearcut in clearcut-1.0.9 dpkg-source: info: unpacking clearcut_1.0.9.orig.tar.gz dpkg-source: info: unpacking clearcut_1.0.9-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying mothur_trivial_patch dpkg-source: info: applying hardening.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/10196/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='284bd3d547204cbe8369070e98003188' 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='10196' 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.JRyymwHjbo/pbuilderrc_G9Kl --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.JRyymwHjbo/b1 --logfile b1/build.log clearcut_1.0.9-3.dsc' SUDO_GID='113' SUDO_UID='107' 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 cbxi4a 4.19.0-10-armmp #1 SMP Debian 4.19.132-1 (2020-07-24) armv7l 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 Aug 3 20:27 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/10196/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 4s (4850 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/clearcut-1.0.9/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package clearcut dpkg-buildpackage: info: source version 1.0.9-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean dh clean dh_auto_clean make -j3 clean make[1]: Entering directory '/build/clearcut-1.0.9' rm -f *.o a.out *.a clearcut make[1]: Leaving directory '/build/clearcut-1.0.9' dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j3 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/clearcut-1.0.9' gcc -c -I /usr/local/include -O3 -Wall -funroll-loops -fomit-frame-pointer clearcut.c gcc -c -I /usr/local/include -O3 -Wall -funroll-loops -fomit-frame-pointer dist.c gcc -c -I /usr/local/include -O3 -Wall -funroll-loops -fomit-frame-pointer dmat.c dist.c: In function 'NJ_DNA_jc_correction': dist.c:268:12: warning: variable 'k' set but not used [-Wunused-but-set-variable] long int k; ^ clearcut.c: In function 'NJ_neighbor_joining': clearcut.c:1106:9: warning: variable 'min' set but not used [-Wunused-but-set-variable] float min; ^~~ clearcut.c: In function 'NJ_relaxed_nj': clearcut.c:1224:12: warning: variable 'q' set but not used [-Wunused-but-set-variable] float p, q, x; ^ dist.c: In function 'NJ_compute_dmat': dist.c:154:5: warning: 'strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] strncpy(dmat->taxaname[i], alignment->titles[i], strlen(alignment->titles[i])); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -I /usr/local/include -O3 -Wall -funroll-loops -fomit-frame-pointer fasta.c gcc -c -I /usr/local/include -O3 -Wall -funroll-loops -fomit-frame-pointer cmdargs.c fasta.c: In function 'NJ_read_fasta': fasta.c:307:19: warning: variable 'x' set but not used [-Wunused-but-set-variable] long int index, x, seq; ^ gcc -c -I /usr/local/include -O3 -Wall -funroll-loops -fomit-frame-pointer prng.c gcc -c -I /usr/local/include -O3 -Wall -funroll-loops -fomit-frame-pointer getopt_long.c gcc -o clearcut clearcut.o dist.o dmat.o fasta.o cmdargs.o prng.o getopt_long.o -lm -Wl,-z,relro make[1]: Leaving directory '/build/clearcut-1.0.9' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/clearcut-1.0.9' dh_compress -X.dist make[1]: Leaving directory '/build/clearcut-1.0.9' dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'clearcut-dbgsym' in '../clearcut-dbgsym_1.0.9-3_armhf.deb'. dpkg-deb: building package 'clearcut' in '../clearcut_1.0.9-3_armhf.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../clearcut_1.0.9-3_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/10196 and its subdirectories I: Current time: Wed Aug 5 20:28:29 -12 2020 I: pbuilder-time-stamp: 1596702509 Thu Aug 6 08:28:36 UTC 2020 I: 1st build successful. Starting 2nd build on remote node p64c-armhf-rb.debian.net. Thu Aug 6 08:28:36 UTC 2020 I: Preparing to do remote build '2' on p64c-armhf-rb.debian.net. Thu Aug 6 08:33:04 UTC 2020 I: Deleting $TMPDIR on p64c-armhf-rb.debian.net. Thu Aug 6 08:33:07 UTC 2020 I: clearcut_1.0.9-3_armhf.changes: Format: 1.8 Date: Fri, 19 Oct 2018 15:49:31 +0200 Source: clearcut Binary: clearcut clearcut-dbgsym Architecture: armhf Version: 1.0.9-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: clearcut - extremely efficient phylogenetic tree reconstruction Changes: clearcut (1.0.9-3) unstable; urgency=medium . [ Steffen Moeller ] * debian/upstream/metadata: - yamllint cleanliness - added references to registries . [ Andreas Tille ] * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 * Secure URI in copyright format Checksums-Sha1: 9f879c7cd285de5ba51a1c7e3630285ed523d498 4252 clearcut-dbgsym_1.0.9-3_armhf.deb 6a9b65fa76b9bf756e786e6fddb03286e6827900 4505 clearcut_1.0.9-3_armhf.buildinfo 81b3a111be47318e3d45e5262c21cd0bdf93eded 277888 clearcut_1.0.9-3_armhf.deb Checksums-Sha256: 8abc75e70caba7b92a464e177809ab1802c55f989ebf5f59a1560b3b007b8008 4252 clearcut-dbgsym_1.0.9-3_armhf.deb 3bbd3360c3ef10308cf70216ce0fd89c2b380b97d869fd1886985fc117b239c1 4505 clearcut_1.0.9-3_armhf.buildinfo 5a53f9463e75f8c149b15ba938c7305594122c105163e9505db018356c4a229b 277888 clearcut_1.0.9-3_armhf.deb Files: 1e9e70907a5ba5dc18e5a43aa71a95d7 4252 debug optional clearcut-dbgsym_1.0.9-3_armhf.deb 6f8be9eea08fb1e95b56759fb19b1c28 4505 science optional clearcut_1.0.9-3_armhf.buildinfo da69114c336bae1ddd751cb88799c928 277888 science optional clearcut_1.0.9-3_armhf.deb Thu Aug 6 08:33:08 UTC 2020 I: diffoscope 154 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.JRyymwHjbo/clearcut_1.0.9-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.JRyymwHjbo/clearcut_1.0.9-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.JRyymwHjbo/clearcut_1.0.9-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.JRyymwHjbo/b1/clearcut_1.0.9-3_armhf.changes /srv/reproducible-results/rbuild-debian/tmp.JRyymwHjbo/b2/clearcut_1.0.9-3_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: 0.248s) 0.248s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.023s) 0.023s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Thu Aug 6 08:33:09 UTC 2020 I: diffoscope 154 found no differences in the changes files, and a .buildinfo file also exists. Thu Aug 6 08:33:09 UTC 2020 I: clearcut from buster built successfully and reproducibly on armhf. Thu Aug 6 08:33:11 UTC 2020 I: Submitting .buildinfo files to external archives: Thu Aug 6 08:33:11 UTC 2020 I: Submitting 8.0K b1/clearcut_1.0.9-3_armhf.buildinfo.asc Thu Aug 6 08:33:11 UTC 2020 I: Submitting 8.0K b2/clearcut_1.0.9-3_armhf.buildinfo.asc Thu Aug 6 08:33:13 UTC 2020 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Aug 6 08:33:13 UTC 2020 I: Done submitting .buildinfo files. Thu Aug 6 08:33:13 UTC 2020 I: Removing signed clearcut_1.0.9-3_armhf.buildinfo.asc files: removed './b1/clearcut_1.0.9-3_armhf.buildinfo.asc' removed './b2/clearcut_1.0.9-3_armhf.buildinfo.asc'