Sat Sep 11 20:24:46 UTC 2021 I: starting to build fastdnaml/bullseye/armhf on jenkins on '2021-09-11 20:24' Sat Sep 11 20:24:46 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_14/5649/console.log Sat Sep 11 20:24:46 UTC 2021 I: Downloading source for bullseye/fastdnaml=1.2.2-15 --2021-09-11 20:24:47-- http://cdn-fastly.deb.debian.org/debian/pool/main/f/fastdnaml/fastdnaml_1.2.2-15.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2037 (2.0K) Saving to: ‘fastdnaml_1.2.2-15.dsc’ 0K . 100% 120M=0s 2021-09-11 20:24:47 (120 MB/s) - ‘fastdnaml_1.2.2-15.dsc’ saved [2037/2037] Sat Sep 11 20:24:47 UTC 2021 I: fastdnaml_1.2.2-15.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: fastdnaml Binary: fastdnaml Architecture: any Version: 1.2.2-15 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Charles Plessy Homepage: ftp://ftp.bio.indiana.edu/molbio/evolve/fastdnaml/fastDNAml.html Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/fastdnaml Vcs-Git: https://salsa.debian.org/med-team/fastdnaml.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: fastdnaml deb science optional arch=any Checksums-Sha1: 78197cbd760163f65085ac80c36d4286a1f29e34 70005 fastdnaml_1.2.2.orig.tar.gz 69d8758531b599fca477f82d26f963722d045018 7848 fastdnaml_1.2.2-15.debian.tar.xz Checksums-Sha256: 34690ec9a8e2fe1d86bea4a7cb10f7bc47e5e4c30719e1c9451210df4f160180 70005 fastdnaml_1.2.2.orig.tar.gz 63cca554d57e0ce0982b5b45de1955766d0986b6cc17de488fbd982c66b93f3e 7848 fastdnaml_1.2.2-15.debian.tar.xz Files: dd9c737e0f433879500391d0e229f763 70005 fastdnaml_1.2.2.orig.tar.gz 9b78e45a6d97335e6a86c9fa29a30f22 7848 fastdnaml_1.2.2-15.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl/LZ6sRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEMXQ/9GI4RhX1doJiz/SVIIYPQAD/vDpQZfI9e Y4ZTlbs8YirEOb0LWxRF2xLm7KsQDGmzTdm2VVhB4d1/wLE83RtAE1P7yEnry7G7 lqWZtgz3P7+Yz8TmPku3k1bG95H92cq3/pjxQkBMEy8NAtpUT3bthsQ6UXt6i/Do Ob+TCDuWvhsr/MrBmgO8iSm7ChfNg467/sw3/eyRawhWrJ7V/g/ACnyJuObXkJRw OxRp+CsSNTOAdoqF5yE1MTLppTkhwZ+cU8pxj45V2/QyP493Q57hEJuJidy0OhJf XOT+r0hIkxhMpdi0ICNr0N+taZ73RzI5nBjXB5r9wgnzBfFPkFQySqfVhfIS8kYZ y3+QLNlud4LsDw0nFRtvUy5XwLnMzAelFQTh+KvoEJCdj8Cs5JGlHgr0DcL/NDgd VDtYfzRd740mtyj5fozmkdN2pwDmO5RrFW/QaeY7sVdah1kGPg4pXjOSydhY2Yyz Qdqn9iARpaDoZIbo7k2nEWLVWluCeZCJ0f9vljRpw+eBybkHkv9HFWvBD3UlNrKX SGRvlbyFOxCRrQC0fKHQLGgcXLBNXTdQmZP8L95XIBGg6XBKkMqvKiohyJ1uzy07 St/o0ljYW9pu2asa8NhGR0/ttU72jU/t/nqgboHrpY1bA2ulQtDp1h+7m3JUass3 Pckq1graS48= =+ve4 -----END PGP SIGNATURE----- Sat Sep 11 20:24:47 UTC 2021 I: Checking whether the package is not for us Sat Sep 11 20:24:47 UTC 2021 I: Starting 1st build on remote node virt32a-armhf-rb.debian.net. Sat Sep 11 20:24:47 UTC 2021 I: Preparing to do remote build '1' on virt32a-armhf-rb.debian.net. Sat Sep 11 20:29:14 UTC 2021 I: Deleting $TMPDIR on virt32a-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Sep 11 08:25:11 -12 2021 I: pbuilder-time-stamp: 1631391911 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-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 [fastdnaml_1.2.2-15.dsc] I: copying [./fastdnaml_1.2.2.orig.tar.gz] I: copying [./fastdnaml_1.2.2-15.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.2q1rdjLU/trustedkeys.kbx': General error gpgv: Signature made Fri Dec 4 22:57:47 2020 -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 ./fastdnaml_1.2.2-15.dsc dpkg-source: info: extracting fastdnaml in fastdnaml-1.2.2 dpkg-source: info: unpacking fastdnaml_1.2.2.orig.tar.gz dpkg-source: info: unpacking fastdnaml_1.2.2-15.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Makefile.patch dpkg-source: info: applying scripts.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying cross.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/5117/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,-fixfilepath parallel=3' DISTRIBUTION='' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='294d4b521cd7429dbcc66737ce8be2c1' 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='5117' 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.f6a9RkLWH6/pbuilderrc_VtMR --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.f6a9RkLWH6/b1 --logfile b1/build.log fastdnaml_1.2.2-15.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 virt32a 5.10.0-8-armmp-lpae #1 SMP Debian 5.10.46-4 (2021-08-03) armv7l GNU/Linux I: ls -l /bin total 3580 -rwxr-xr-x 1 root root 816764 Aug 4 08:25 bash -rwxr-xr-x 3 root root 26052 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 9636 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 26668 Sep 22 2020 cat -rwxr-xr-x 1 root root 43104 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 38984 Sep 22 2020 chmod -rwxr-xr-x 1 root root 43112 Sep 22 2020 chown -rwxr-xr-x 1 root root 92616 Sep 22 2020 cp -rwxr-xr-x 1 root root 75524 Dec 10 2020 dash -rwxr-xr-x 1 root root 75880 Sep 22 2020 date -rwxr-xr-x 1 root root 55436 Sep 22 2020 dd -rwxr-xr-x 1 root root 59912 Sep 22 2020 df -rwxr-xr-x 1 root root 96764 Sep 22 2020 dir -rwxr-xr-x 1 root root 55012 Jul 28 07:09 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 22508 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 22496 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 47492 Jul 28 07:09 findmnt -rwsr-xr-x 1 root root 26076 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 124508 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 64212 Mar 2 2021 gzip -rwxr-xr-x 1 root root 13784 Nov 6 2019 hostname -rwxr-xr-x 1 root root 43180 Sep 22 2020 ln -rwxr-xr-x 1 root root 35068 Feb 7 2020 login -rwxr-xr-x 1 root root 96764 Sep 22 2020 ls -rwxr-xr-x 1 root root 99940 Jul 28 07:09 lsblk -rwxr-xr-x 1 root root 51408 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 43184 Sep 22 2020 mknod -rwxr-xr-x 1 root root 30780 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 34408 Jul 28 07:09 more -rwsr-xr-x 1 root root 34400 Jul 28 07:09 mount -rwxr-xr-x 1 root root 9824 Jul 28 07:09 mountpoint -rwxr-xr-x 1 root root 88524 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 26652 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash -rwxr-xr-x 1 root root 30740 Sep 22 2020 readlink -rwxr-xr-x 1 root root 43104 Sep 22 2020 rm -rwxr-xr-x 1 root root 30732 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 14144 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Sep 6 21:26 sh -> dash -rwxr-xr-x 1 root root 22532 Sep 22 2020 sleep -rwxr-xr-x 1 root root 55360 Sep 22 2020 stty -rwsr-xr-x 1 root root 46704 Jul 28 07:09 su -rwxr-xr-x 1 root root 22532 Sep 22 2020 sync -rwxr-xr-x 1 root root 340872 Feb 16 2021 tar -rwxr-xr-x 1 root root 9808 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 67696 Sep 22 2020 touch -rwxr-xr-x 1 root root 22496 Sep 22 2020 true -rwxr-xr-x 1 root root 9636 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 22108 Jul 28 07:09 umount -rwxr-xr-x 1 root root 22520 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 96764 Sep 22 2020 vdir -rwxr-xr-x 1 root root 38512 Jul 28 07:09 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/5117/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-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 ... 19398 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} libicu67{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsigsegv2{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, 31 newly installed, 0 to remove and 0 not upgraded. Need to get 17.7 MB of archives. After unpacking 62.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main armhf bsdextrautils armhf 2.36.1-8 [138 kB] Get: 2 http://deb.debian.org/debian bullseye/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 3 http://deb.debian.org/debian bullseye/main armhf groff-base armhf 1.22.4-6 [847 kB] Get: 4 http://deb.debian.org/debian bullseye/main armhf libpipeline1 armhf 1.5.3-1 [30.1 kB] Get: 5 http://deb.debian.org/debian bullseye/main armhf man-db armhf 2.9.4-2 [1319 kB] Get: 6 http://deb.debian.org/debian bullseye/main armhf sensible-utils all 0.0.14 [14.8 kB] Get: 7 http://deb.debian.org/debian bullseye/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB] Get: 8 http://deb.debian.org/debian bullseye/main armhf libmagic1 armhf 1:5.39-3 [117 kB] Get: 9 http://deb.debian.org/debian bullseye/main armhf file armhf 1:5.39-3 [68.1 kB] Get: 10 http://deb.debian.org/debian bullseye/main armhf gettext-base armhf 0.21-4 [171 kB] Get: 11 http://deb.debian.org/debian bullseye/main armhf libsigsegv2 armhf 2.13-1 [34.0 kB] Get: 12 http://deb.debian.org/debian bullseye/main armhf m4 armhf 1.4.18-5 [192 kB] Get: 13 http://deb.debian.org/debian bullseye/main armhf autoconf all 2.69-14 [313 kB] Get: 14 http://deb.debian.org/debian bullseye/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main armhf automake all 1:1.16.3-2 [814 kB] Get: 16 http://deb.debian.org/debian bullseye/main armhf autopoint all 0.21-4 [510 kB] Get: 17 http://deb.debian.org/debian bullseye/main armhf libdebhelper-perl all 13.3.4 [189 kB] Get: 18 http://deb.debian.org/debian bullseye/main armhf libtool all 2.4.6-15 [513 kB] Get: 19 http://deb.debian.org/debian bullseye/main armhf dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian bullseye/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian bullseye/main armhf libsub-override-perl all 0.09-2 [10.2 kB] Get: 22 http://deb.debian.org/debian bullseye/main armhf libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 23 http://deb.debian.org/debian bullseye/main armhf dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 24 http://deb.debian.org/debian bullseye/main armhf libelf1 armhf 0.183-1 [161 kB] Get: 25 http://deb.debian.org/debian bullseye/main armhf dwz armhf 0.13+20210201-1 [179 kB] Get: 26 http://deb.debian.org/debian bullseye/main armhf libicu67 armhf 67.1-7 [8319 kB] Get: 27 http://deb.debian.org/debian bullseye/main armhf libxml2 armhf 2.9.10+dfsg-6.7 [602 kB] Get: 28 http://deb.debian.org/debian bullseye/main armhf gettext armhf 0.21-4 [1243 kB] Get: 29 http://deb.debian.org/debian bullseye/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 30 http://deb.debian.org/debian bullseye/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian bullseye/main armhf debhelper all 13.3.4 [1049 kB] Fetched 17.7 MB in 6s (2729 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19398 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_armhf.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../01-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_armhf.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../03-libpipeline1_1.5.3-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_armhf.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../05-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../06-libmagic-mgc_1%3a5.39-3_armhf.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../07-libmagic1_1%3a5.39-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../08-file_1%3a5.39-3_armhf.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../09-gettext-base_0.21-4_armhf.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:armhf. Preparing to unpack .../10-libsigsegv2_2.13-1_armhf.deb ... Unpacking libsigsegv2:armhf (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.18-5_armhf.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-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 .../20-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../21-libfile-stripnondeterminism-perl_1.12.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../22-dh-strip-nondeterminism_1.12.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.12.0-1) ... Selecting previously unselected package libelf1:armhf. Preparing to unpack .../23-libelf1_0.183-1_armhf.deb ... Unpacking libelf1:armhf (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.13+20210201-1_armhf.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package libicu67:armhf. Preparing to unpack .../25-libicu67_67.1-7_armhf.deb ... Unpacking libicu67:armhf (67.1-7) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../26-libxml2_2.9.10+dfsg-6.7_armhf.deb ... Unpacking libxml2:armhf (2.9.10+dfsg-6.7) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.21-4_armhf.deb ... Unpacking gettext (0.21-4) ... 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Setting up libsigsegv2:armhf (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libelf1:armhf (0.183-1) ... Setting up libxml2:armhf (2.9.10+dfsg-6.7) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up m4 (1.4.18-5) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13) ... 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/fastdnaml-1.2.2/ && 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 > ../fastdnaml_1.2.2-15_source.changes dpkg-buildpackage: info: source package fastdnaml dpkg-buildpackage: info: source version 1.2.2-15 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_auto_clean make -j3 clean make[1]: Entering directory '/build/fastdnaml-1.2.2' (cd source; rm -f *.o fastDNAml) rm -rf tests rm -f checkpoint.* make[1]: Leaving directory '/build/fastdnaml-1.2.2' debian/rules override_dh_clean make[1]: Entering directory '/build/fastdnaml-1.2.2' dh_clean rm -fr source/fastDNAml make[1]: Leaving directory '/build/fastdnaml-1.2.2' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j3 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/fastdnaml-1.2.2' cd source && cc -g -O2 -fdebug-prefix-map=/build/fastdnaml-1.2.2=. -fstack-protector-strong -Wformat -Werror=format-security fastDNAml.c -o fastDNAml -lm -Wl,-z,relro -Wl,-z,now In file included from fastDNAml.c:207: fastDNAml.h:222:10: warning: conflicting types for built-in function 'malloc'; expected 'void *(unsigned int)' [-Wbuiltin-declaration-mismatch] 222 | char *malloc(); | ^~~~~~ fastDNAml.h:1:1: note: 'malloc' is declared in header '' +++ |+#include 1 | /* fastDNAml.h */ fastDNAml.c: In function 'freeTopol': fastDNAml.h:228:28: warning: implicit declaration of function 'free' [-Wimplicit-function-declaration] 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:342:5: note: in expansion of macro 'Free' 342 | Free(tpl->links); | ^~~~ fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:342:5: note: in expansion of macro 'Free' 342 | Free(tpl->links); | ^~~~ fastDNAml.c:208:1: note: include '' or provide a declaration of 'free' 207 | #include "fastDNAml.h" /* Requires version 1.2 */ +++ |+#include 208 | In file included from fastDNAml.c:207: fastDNAml.c: In function 'freeTreeNode': fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:1533:23: note: in expansion of macro 'Free' 1533 | if (p->x->lv) Free(p->x->lv); | ^~~~ fastDNAml.h:228:28: note: include '' or provide a declaration of 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:1533:23: note: in expansion of macro 'Free' 1533 | if (p->x->lv) Free(p->x->lv); | ^~~~ fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:1534:9: note: in expansion of macro 'Free' 1534 | Free(p->x); | ^~~~ fastDNAml.h:228:28: note: include '' or provide a declaration of 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:1534:9: note: in expansion of macro 'Free' 1534 | Free(p->x); | ^~~~ fastDNAml.c: In function 'freeTree': fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:1560:5: note: in expansion of macro 'Free' 1560 | Free(tr->nodep[1]); /* Free the actual nodes */ | ^~~~ fastDNAml.h:228:28: note: include '' or provide a declaration of 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:1560:5: note: in expansion of macro 'Free' 1560 | Free(tr->nodep[1]); /* Free the actual nodes */ | ^~~~ fastDNAml.c: In function 'setupxarray': fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:2028:9: note: in expansion of macro 'Free' 2028 | Free(x); | ^~~~ fastDNAml.h:228:28: note: include '' or provide a declaration of 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:2028:9: note: in expansion of macro 'Free' 2028 | Free(x); | ^~~~ fastDNAml.c: In function 'makenewz': fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:2604:5: note: in expansion of macro 'Free' 2604 | Free(abi); | ^~~~ fastDNAml.h:228:28: note: include '' or provide a declaration of 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:2604:5: note: in expansion of macro 'Free' 2604 | Free(abi); | ^~~~ fastDNAml.c: In function 'readKeyValue': fastDNAml.c:2886:15: warning: implicit declaration of function 'strlen' [-Wimplicit-function-declaration] 2886 | string += strlen(key); | ^~~~~~ fastDNAml.c:2886:15: warning: incompatible implicit declaration of built-in function 'strlen' fastDNAml.c:208:1: note: include '' or provide a declaration of 'strlen' 207 | #include "fastDNAml.h" /* Requires version 1.2 */ +++ |+#include 208 | fastDNAml.c: In function 'fopen_pid': fastDNAml.c:3231:47: warning: implicit declaration of function 'getpid' [-Wimplicit-function-declaration] 3231 | (void) sprintf(name_pid, "%s.%d", filenm, getpid()); | ^~~~~~ In file included from fastDNAml.c:207: fastDNAml.c: In function 'treeOut': fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:3683:5: note: in expansion of macro 'Free' 3683 | Free(treestr); | ^~~~ fastDNAml.h:228:28: note: include '' or provide a declaration of 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:3683:5: note: in expansion of macro 'Free' 3683 | Free(treestr); | ^~~~ fastDNAml.c: In function 'cmpBestTrees': fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:4535:5: note: in expansion of macro 'Free' 4535 | Free(log_f0); | ^~~~ fastDNAml.h:228:28: note: include '' or provide a declaration of 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:4535:5: note: in expansion of macro 'Free' 4535 | Free(log_f0); | ^~~~ fastDNAml.c: In function 'makeDenovoTree': fastDNAml.h:228:28: warning: incompatible implicit declaration of built-in function 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:4765:5: note: in expansion of macro 'Free' 4765 | Free(enterorder); | ^~~~ fastDNAml.h:228:28: note: include '' or provide a declaration of 'free' 228 | #define Free(x) (void) free((char *) (x)) /* BSD */ | ^~~~ fastDNAml.c:4765:5: note: in expansion of macro 'Free' 4765 | Free(enterorder); | ^~~~ fastDNAml.c: At top level: fastDNAml.c:4775:3: warning: return type defaults to 'int' [-Wimplicit-int] 4775 | main () | ^~~~ make[1]: Leaving directory '/build/fastdnaml-1.2.2' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/fastdnaml-1.2.2' # do nothing make[1]: Leaving directory '/build/fastdnaml-1.2.2' debian/rules override_dh_install make[1]: Entering directory '/build/fastdnaml-1.2.2' dh_install cp -a docs/fastDNAml_doc_1.2.txt `pwd`/debian/`dh_listpackages`/usr/share/`dh_listpackages`/fastdnaml_help # the scripts have to be executable thus mentioning these in debian/install is not enough cp -a scripts/* `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin chmod 755 `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin/* make[1]: Leaving directory '/build/fastdnaml-1.2.2' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_installmenu dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'fastdnaml' in '../fastdnaml_1.2.2-15_armhf.deb'. dpkg-deb: building package 'fastdnaml-dbgsym' in '../fastdnaml-dbgsym_1.2.2-15_armhf.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../fastdnaml_1.2.2-15_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) 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/5117 and its subdirectories I: Current time: Sat Sep 11 08:29:10 -12 2021 I: pbuilder-time-stamp: 1631392150 Sat Sep 11 20:29:16 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ff64a-armhf-rb.debian.net. Sat Sep 11 20:29:16 UTC 2021 I: Preparing to do remote build '2' on ff64a-armhf-rb.debian.net. Sat Sep 11 20:34:08 UTC 2021 I: Deleting $TMPDIR on ff64a-armhf-rb.debian.net. Sat Sep 11 20:34:10 UTC 2021 I: fastdnaml_1.2.2-15_armhf.changes: Format: 1.8 Date: Sat, 05 Dec 2020 11:52:15 +0100 Source: fastdnaml Binary: fastdnaml fastdnaml-dbgsym Architecture: armhf Version: 1.2.2-15 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: fastdnaml - Tool for construction of phylogenetic trees of DNA sequences Changes: fastdnaml (1.2.2-15) unstable; urgency=medium . * Standards-Version: 4.5.1 (routine-update) * debhelper-compat 13 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) Checksums-Sha1: b4facc6efaf2bda3d8a84603b6c852fe34fdbc44 72976 fastdnaml-dbgsym_1.2.2-15_armhf.deb ccacdcab08edf29e8e5df1dcf91f712c4a3af17a 4769 fastdnaml_1.2.2-15_armhf.buildinfo 7cbc9a90da3e23a098a32468db0a9984320ebab2 55724 fastdnaml_1.2.2-15_armhf.deb Checksums-Sha256: da7d663648258999917cdc718045946f49458f1d2ee0523859073fac580e0ed4 72976 fastdnaml-dbgsym_1.2.2-15_armhf.deb 4e947761c62c0a59a7f3caa589ffedd0cb400dfa32e115da8a62dc40597bc885 4769 fastdnaml_1.2.2-15_armhf.buildinfo 473a9095c8b072be9ceb81bc22c0be7ddf211501063ea8a98c20a8f44d1b9241 55724 fastdnaml_1.2.2-15_armhf.deb Files: d18d2a4f4fe4a3b0a42956ee6966bb0a 72976 debug optional fastdnaml-dbgsym_1.2.2-15_armhf.deb 99f3850c37669aa4cfeabbf8d92abb39 4769 science optional fastdnaml_1.2.2-15_armhf.buildinfo b1144020f3822298dd6e97938c3bf120 55724 science optional fastdnaml_1.2.2-15_armhf.deb Sat Sep 11 20:34:11 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.f6a9RkLWH6/fastdnaml_1.2.2-15.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.f6a9RkLWH6/fastdnaml_1.2.2-15.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.f6a9RkLWH6/fastdnaml_1.2.2-15.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.f6a9RkLWH6/b1/fastdnaml_1.2.2-15_armhf.changes /srv/reproducible-results/rbuild-debian/tmp.f6a9RkLWH6/b2/fastdnaml_1.2.2-15_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: 0.263s) 0.263s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.018s) 0.018s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sat Sep 11 20:34:13 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Sat Sep 11 20:34:13 UTC 2021 I: fastdnaml from bullseye built successfully and reproducibly on armhf. Sat Sep 11 20:34:14 UTC 2021 I: Submitting .buildinfo files to external archives: Sat Sep 11 20:34:14 UTC 2021 I: Submitting 8.0K b1/fastdnaml_1.2.2-15_armhf.buildinfo.asc Sat Sep 11 20:34:17 UTC 2021 I: Submitting 8.0K b2/fastdnaml_1.2.2-15_armhf.buildinfo.asc Sat Sep 11 20:34:19 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Sep 11 20:34:19 UTC 2021 I: Done submitting .buildinfo files. Sat Sep 11 20:34:19 UTC 2021 I: Removing signed fastdnaml_1.2.2-15_armhf.buildinfo.asc files: removed './b1/fastdnaml_1.2.2-15_armhf.buildinfo.asc' removed './b2/fastdnaml_1.2.2-15_armhf.buildinfo.asc'