Tue Jul 28 10:58:45 UTC 2020 I: starting to build pirs/buster/i386 on jenkins on '2020-07-28 10:58' Tue Jul 28 10:58:45 UTC 2020 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_13/4639/console.log Tue Jul 28 10:58:45 UTC 2020 I: Downloading source for buster/pirs=2.0.2+dfsg-8 --2020-07-28 10:58:45-- http://deb.debian.org/debian/pool/main/p/pirs/pirs_2.0.2+dfsg-8.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2110 (2.1K) Saving to: ‘pirs_2.0.2+dfsg-8.dsc’ 0K .. 100% 35.6M=0s 2020-07-28 10:58:45 (35.6 MB/s) - ‘pirs_2.0.2+dfsg-8.dsc’ saved [2110/2110] Tue Jul 28 10:58:45 UTC 2020 I: pirs_2.0.2+dfsg-8.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: pirs Binary: pirs, pirs-profiles, pirs-examples Architecture: any all Version: 2.0.2+dfsg-8 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/galaxy001/pirs Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/med-team/pirs Vcs-Git: https://salsa.debian.org/med-team/pirs.git Testsuite: autopkgtest Build-Depends: debhelper (>= 11~), libboost-dev, zlib1g-dev, libgzstream-dev Package-List: pirs deb science optional arch=any pirs-examples deb science optional arch=all pirs-profiles deb science optional arch=all Checksums-Sha1: f7ad7b1afb04ddb941cf2aa00a368ee61883fcdd 6029204 pirs_2.0.2+dfsg.orig.tar.xz 6b6b345f0af7dd1c498bda5b8ef229cb2414aa20 6816 pirs_2.0.2+dfsg-8.debian.tar.xz Checksums-Sha256: ef7ed1400dafd06f29a699023f0ecdcd52e0073254c87646c4ecea803e4b1d93 6029204 pirs_2.0.2+dfsg.orig.tar.xz 2b66dbb6966ac14457a369196d666b93870b305a6c41bde36265e4d817bf1b49 6816 pirs_2.0.2+dfsg-8.debian.tar.xz Files: 1ee1373ad8b358f61adc8429645f946d 6029204 pirs_2.0.2+dfsg.orig.tar.xz 597d56f3a1be505292e53575e77212bd 6816 pirs_2.0.2+dfsg-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJCBAEBCAAsFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlzZE0MOHHRpbGxlYUBy a2kuZGUACgkQV4oElNHGRtEydg//ahtxk/fdrIIMVeeEiQG3KGv2mmK267fGJ2dH 0VQWpWEUIVQHTUGY9iNOP9Qzn0tbX1PYFGiIyKLUc5xJDoyC0BuSHPt3NufqnvzH 0v2Deh5iDqBvQHpWExiyBuOTWpJfPPCI/iIrA4Re1uxtFJrWT+zmjwQmyLi7vdsJ JSFOQlG7RP7HdNWaQznTenKHjsSsaWjnDo3p3pY8l8Mw+DtDSsAL2n0qoeB5/AgD tx/BLWcUIMEAb9Qu+5gMxhDlrTg5Y8pEKs0HKPkEHlCPIwB07kplMMDCeEqinJcD Re7oUPzXG3eIUex5fpg7ONObihw2CerCB7aIYQPizvnY2qQHpR0VlGao573P+6NV Kx0ea6Mf3RlH5+Vfjpnlpsko6W9rPLJBM1o4ZmihiEyXcIotSyhYmLv89PfO57Hk VQAFjJn80W4WVbb1+egAFD2b/l6evio0KcNUkhCjgXHP3hOhL3VE5TmJ8gTrLWyc rYRYx9QQ4S+7IzU0gsZYbTzOfmEmhoWQtsyXanZ6gy3I+HdBkVTWQ9lFauGH/qjz ffzSuSUzn/W+aqkjyz5S++iiAQy1Eok39coP8pHXh4dykvAmLec7XtYvu8VJf2bL DnP5syw5AXLTphKD4HYbyo3aO3WOiCN/qM5VWjT23lbbMJH21v7GYOUB32BNGkCN t2WLgPA= =6Fg8 -----END PGP SIGNATURE----- Tue Jul 28 10:58:45 UTC 2020 I: Checking whether the package is not for us Tue Jul 28 10:58:45 UTC 2020 I: Starting 1st build on remote node profitbricks-build12-i386.debian.net. Tue Jul 28 10:58:45 UTC 2020 I: Preparing to do remote build '1' on profitbricks-build12-i386.debian.net. Tue Jul 28 11:01:55 UTC 2020 I: Deleting $TMPDIR on profitbricks-build12-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Jul 27 22:58:51 -12 2020 I: pbuilder-time-stamp: 1595933931 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: using eatmydata during job I: Copying source file I: copying [pirs_2.0.2+dfsg-8.dsc] I: copying [./pirs_2.0.2+dfsg.orig.tar.xz] I: copying [./pirs_2.0.2+dfsg-8.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 Sun May 12 18:48:35 2019 -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 ./pirs_2.0.2+dfsg-8.dsc dpkg-source: info: extracting pirs in pirs-2.0.2+dfsg dpkg-source: info: unpacking pirs_2.0.2+dfsg.orig.tar.xz dpkg-source: info: unpacking pirs_2.0.2+dfsg-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_libgzstream.patch dpkg-source: info: applying Fix-spelling-of-sse2-option.patch dpkg-source: info: applying do_not_seek_for_arial.ttf.patch dpkg-source: info: applying Remove-mtune-compiler-flag.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/10246/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='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=10' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='ec7a7d8e45da49d0890607464070e12d' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' 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='10246' 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.PjDF8j8XrZ/pbuilderrc_cGyo --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.PjDF8j8XrZ/b1 --logfile b1/build.log pirs_2.0.2+dfsg-8.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux profitbricks-build12-i386 4.19.0-9-686-pae #1 SMP Debian 4.19.118-2+deb10u1 (2020-06-07) i686 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1302248 Apr 17 2019 bash -rwxr-xr-x 3 root root 38280 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38280 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 38280 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 17768 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 38692 Feb 28 2019 cat -rwxr-xr-x 1 root root 75588 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 63268 Feb 28 2019 chmod -rwxr-xr-x 1 root root 75588 Feb 28 2019 chown -rwxr-xr-x 1 root root 153732 Feb 28 2019 cp -rwxr-xr-x 1 root root 132820 Jan 17 2019 dash -rwxr-xr-x 1 root root 120676 Feb 28 2019 date -rwxr-xr-x 1 root root 92040 Feb 28 2019 dd -rwxr-xr-x 1 root root 100620 Feb 28 2019 df -rwxr-xr-x 1 root root 149736 Feb 28 2019 dir -rwxr-xr-x 1 root root 79412 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 34532 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 34532 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 67700 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 30112 Apr 22 07:38 fusermount -rwxr-xr-x 1 root root 206392 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 100952 Jan 5 2019 gzip -rwxr-xr-x 1 root root 21916 Sep 26 2018 hostname -rwxr-xr-x 1 root root 79752 Feb 28 2019 ln -rwxr-xr-x 1 root root 55400 Jul 26 2018 login -rwxr-xr-x 1 root root 149736 Feb 28 2019 ls -rwxr-xr-x 1 root root 112032 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 87972 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 79748 Feb 28 2019 mknod -rwxr-xr-x 1 root root 46916 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 42348 Jan 9 2019 more -rwsr-xr-x 1 root root 50592 Jan 9 2019 mount -rwxr-xr-x 1 root root 13724 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 157832 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 38660 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 46852 Feb 28 2019 readlink -rwxr-xr-x 1 root root 75588 Feb 28 2019 rm -rwxr-xr-x 1 root root 42756 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 22276 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jul 26 20:28 sh -> dash -rwxr-xr-x 1 root root 34532 Feb 28 2019 sleep -rwxr-xr-x 1 root root 79652 Feb 28 2019 stty -rwsr-xr-x 1 root root 71072 Jan 9 2019 su -rwxr-xr-x 1 root root 34564 Feb 28 2019 sync -rwxr-xr-x 1 root root 504024 Apr 23 2019 tar -rwxr-xr-x 1 root root 13860 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 104292 Feb 28 2019 touch -rwxr-xr-x 1 root root 34532 Feb 28 2019 true -rwxr-xr-x 1 root root 17768 Apr 22 07:38 ulockmgr_server -rwsr-xr-x 1 root root 30108 Jan 9 2019 umount -rwxr-xr-x 1 root root 34532 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 149736 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34208 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/10246/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: i386 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~), libboost-dev, zlib1g-dev, libgzstream-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19234 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. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libgzstream-dev; however: Package libgzstream-dev 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} libboost-dev{a} libboost1.67-dev{a} libbsd0{a} libcroco3{a} libelf1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libgzstream-dev{a} libgzstream0{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} zlib1g-dev{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, 38 newly installed, 0 to remove and 0 not upgraded. Need to get 28.0 MB of archives. After unpacking 201 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 8 http://deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4+deb10u1 [242 kB] Get: 9 http://deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4+deb10u1 [124 kB] Get: 10 http://deb.debian.org/debian buster/main i386 file i386 1:5.35-4+deb10u1 [66.3 kB] Get: 11 http://deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 12 http://deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 13 http://deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 14 http://deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 15 http://deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 16 http://deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 17 http://deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 18 http://deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 19 http://deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 20 http://deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 21 http://deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 22 http://deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 23 http://deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 24 http://deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 25 http://deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2+deb10u2 [1334 kB] Get: 26 http://deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6+deb10u1 [8451 kB] Get: 27 http://deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 28 http://deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 29 http://deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2+deb10u2 [109 kB] Get: 30 http://deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 31 http://deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 32 http://deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 33 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 34 http://deb.debian.org/debian buster/main i386 libboost1.67-dev i386 1.67.0-13+deb10u1 [8388 kB] Get: 35 http://deb.debian.org/debian buster/main i386 libboost-dev i386 1.67.0.1 [3864 B] Get: 36 http://deb.debian.org/debian buster/main i386 libgzstream0 i386 1.5+dfsg-4 [6756 B] Get: 37 http://deb.debian.org/debian buster/main i386 libgzstream-dev i386 1.5+dfsg-4 [7012 B] Get: 38 http://deb.debian.org/debian buster/main i386 zlib1g-dev i386 1:1.2.11.dfsg-1 [216 kB] Fetched 28.0 MB in 5s (5781 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19234 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../02-libuchardet0_0.0.6-3_i386.deb ... Unpacking libuchardet0:i386 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_i386.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../04-libpipeline1_1.5.1-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_i386.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_i386.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../08-libmagic1_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic1:i386 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../09-file_1%3a5.35-4+deb10u1_i386.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_i386.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../11-libsigsegv2_2.12-2_i386.deb ... Unpacking libsigsegv2:i386 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.18-2_i386.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 ... 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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/pirs-2.0.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package pirs dpkg-buildpackage: info: source version 2.0.2+dfsg-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Helmut Grohne dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_auto_clean cd src && ./srclean.sh >/dev/null 2>/dev/null || true make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' 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 debian/rules override_dh_autoreconf make[1]: Entering directory '/build/pirs-2.0.2+dfsg' cd src && \ mv INSTALL INSTALL.save && \ autoreconf --install && \ mv INSTALL.save INSTALL && \ cd /build/pirs-2.0.2+dfsg configure.ac:9: installing './compile' configure.ac:3: installing './install-sh' configure.ac:3: installing './missing' Makefile.am: installing './INSTALL' pirs/Makefile.am:28: warning: source file 'SFMT-src-1.4/SFMT.c' is in a subdirectory, pirs/Makefile.am:28: but option 'subdir-objects' is disabled automake: warning: possible forward-incompatibility. automake: At least a source file is in a subdirectory, but the 'subdir-objects' automake: automake option hasn't been enabled. For now, the corresponding output automake: object file(s) will be placed in the top-level directory. However, automake: this behaviour will change in future Automake versions: they will automake: unconditionally cause object files to be placed in the same subdirectory automake: of the corresponding sources. automake: You are advised to start using 'subdir-objects' option throughout your automake: project, to avoid future incompatibilities. pirs/Makefile.am: installing './depcomp' make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_auto_configure -- --enable-pirs-diploid --disable-sse2 cd src && ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-pirs-diploid --disable-sse2 configure: WARNING: unrecognized options: --disable-maintainer-mode checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for gcc... gcc checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for gzopen in -lz... yes checking Whether to include support for 'pirs diploid' command... yes checking Whether to include support for 'pirs simulate' command... yes checking Whether to include support for multiple threads... yes checking for g++ option to support OpenMP... -fopenmp checking Whether to include support for SSE2 instructions... no checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating pirs/Makefile config.status: creating config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_auto_build cd src && make -j10 make[2]: Entering directory '/build/pirs-2.0.2+dfsg/src' (CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/bash /build/pirs-2.0.2+dfsg/src/missing autoheader) rm -f stamp-h1 touch config.h.in cd . && /bin/bash ./config.status config.h config.status: creating config.h config.status: config.h is unchanged make all-recursive make[3]: Entering directory '/build/pirs-2.0.2+dfsg/src' Making all in pirs make[4]: Entering directory '/build/pirs-2.0.2+dfsg/src/pirs' g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o InputStream.o InputStream.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o OutputStream.o OutputStream.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o main.o main.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o util.o util.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mt19937-64.o mt19937-64.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pirs_diploid.o pirs_diploid.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o BaseCallingProfile.o BaseCallingProfile.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GCBiasProfile.o GCBiasProfile.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o IndelProfile.o IndelProfile.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MaskQvalsByEamss.o MaskQvalsByEamss.cpp main.cpp:18:19: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] "Compile Date: " __DATE__ " time: " __TIME__ "\n" ^~~~~~~~ main.cpp:18:38: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] "Compile Date: " __DATE__ " time: " __TIME__ "\n" ^~~~~~~~ pirs_diploid.cpp:639:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n", ^ pirs_diploid.cpp:639:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n", ^ pirs_diploid.cpp:639:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n", ^ pirs_diploid.cpp:641:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n", ^ pirs_diploid.cpp:641:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n", ^ pirs_diploid.cpp:641:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n", ^ pirs_diploid.cpp:643:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info(" %#"PRIx64"]\n", het_type_tab[6]); ^ g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Profile.o Profile.cpp util.cpp: In function 'void* xmalloc(size_t)': util.cpp:192:15: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'unsigned int'} [-Wformat=] fatal_error("Out of memory: tried to allocate %lu bytes", size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ util.cpp: In function 'void* xrealloc(void*, size_t)': util.cpp:200:15: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'unsigned int'} [-Wformat=] fatal_error("Out of memory: tried to reallocate %lu bytes", size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ IndelProfile.cpp: In function 'void load_indel_info_line(char*, Profile&)': IndelProfile.cpp:117:26: warning: format '%lu' expects argument of type 'long unsigned int*', but argument 3 has type 'uint64_t*' {aka 'long long unsigned int*'} [-Wformat=] } else if (sscanf(line, "Read_1_Count = %lu", &n) == 1) ^~~~~~~~~~~~~~~~~~~~ ~~ IndelProfile.cpp:119:24: warning: format '%lu' expects argument of type 'long unsigned int*', but argument 3 has type 'uint64_t*' {aka 'long long unsigned int*'} [-Wformat=] else if (sscanf(line, "Read_2_Count = %lu", &n) == 1) ^~~~~~~~~~~~~~~~~~~~ ~~ IndelProfile.cpp: In constructor 'IndelProfile::IndelProfile(const SimulationParameters&)': IndelProfile.cpp:165:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] info(" read_1_count = %lu\n", read_1_count); ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ IndelProfile.cpp:166:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] info(" read_2_count = %lu\n", read_2_count); ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~ pirs_diploid.cpp: In function 'bool try_indel(const double*, const size_t*, const std::vector&, size_t&, std::vector&, bool, const char*, Counter&)': pirs_diploid.cpp:435:25: warning: format '%zu' expects argument of type 'size_t', but argument 4 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] indel_log_file.printf("%s\t%zu\t%zu\t%c\t%zu\t", ^~~~~~~~~~~~~~~~~~~~~~~~~ id, log_ref_seq_idx, log_diploid_seq_idx, ~~~~~~~~~~~~~~~ pirs_diploid.cpp:435:25: warning: format '%zu' expects argument of type 'size_t', but argument 5 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pirs_simulate.o pirs_simulate.cpp pirs_simulate.cpp:168:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " "DEFAULT_BASE_CALLING_PROFILE"\n" ^ pirs_simulate.cpp:174:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " "DEFAULT_INDEL_PROFILE"\n" ^ pirs_simulate.cpp:180:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " "DEFAULT_GC_BIAS_PROFILE_100",\n" ^ pirs_simulate.cpp:181:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " "DEFAULT_GC_BIAS_PROFILE_150",\n" ^ pirs_simulate.cpp:182:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " "DEFAULT_GC_BIAS_PROFILE_200",\n" ^ pirs_simulate.cpp:672:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] out_file.printf("%cread_%d_%"PRIu64"/%d\n", ^ pirs_simulate.cpp:700:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info_log_file.printf("read_%d_%"PRIu64"/%d\t%s\t%s\t%zu\t%c\t%d\t%d\t", ^ pirs_simulate.cpp:1235:10: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Simulated %"PRIu64" of %"PRIu64" read pairs\n", ^ pirs_simulate.cpp:1235:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Simulated %"PRIu64" of %"PRIu64" read pairs\n", ^ pirs_simulate.cpp:1540:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] insert_log.printf("%d\t%"PRIu64"\n", it->first, it->second); ^ pirs_simulate.cpp:1557:2: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "# The total number of read pairs that were simulated was %"PRIu64".\n" ^ pirs_simulate.cpp:1574:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] error_log.printf("%d\t%"PRIu64"\t%g\n", ^ pirs_simulate.cpp:1579:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] error_log.printf("total\t%"PRIu64"\t%g\n", ^ pirs_simulate.cpp:1685:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] log_parameter(info_log, "Random seed: %"PRIu64"\n", ^ pirs_simulate.cpp:1713:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Program: "PROGRAM "\n"); ^ pirs_simulate.cpp:1714:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Version: "VERSION "\n"); ^ pirs_simulate.cpp:1715:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Author: "AUTHOR "\n"); ^ pirs_simulate.cpp:1716:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Contact: "CONTACT "\n"); ^ pirs_simulate.cpp:1717:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Compile Date: "__DATE__ " time: " __TIME__ "\n"); ^ pirs_simulate.cpp:1717:25: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] info("Compile Date: "__DATE__ " time: " __TIME__ "\n"); ^~~~~~~~ pirs_simulate.cpp:1717:44: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] info("Compile Date: "__DATE__ " time: " __TIME__ "\n"); ^~~~~~~~ pirs_simulate.cpp:1764:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Bases in reference sequences: %"PRIu64"\n", ^ pirs_simulate.cpp:1766:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Read pairs simulated: %"PRIu64"\n", ^ pirs_simulate.cpp:1768:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Bases in reads: %"PRIu64"\n", ^ pirs_simulate.cpp:1773:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Substitution error count: %"PRIu64"\n", ^ pirs_simulate.cpp:1777:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Insertion count: %"PRIu64"\n", ^ pirs_simulate.cpp:1779:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Deletion count: %"PRIu64"\n", ^ pirs_simulate.cpp:1795:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Bases masked by EAMSS algorithm: %"PRIu64"\n", counters.masked_bases); ^ pirs_simulate.cpp:1856:8: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] info("Note: A random seed (%"PRIu64") was specified on the command line.\n", ^ g++ -Wall -Wextra -fopenmp -g -O2 -ffile-prefix-map=/build/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o pirs InputStream.o OutputStream.o main.o util.o mt19937-64.o pirs_diploid.o BaseCallingProfile.o GCBiasProfile.o IndelProfile.o MaskQvalsByEamss.o Profile.o pirs_simulate.o -lz -lz make[4]: Leaving directory '/build/pirs-2.0.2+dfsg/src/pirs' make[4]: Entering directory '/build/pirs-2.0.2+dfsg/src' make[4]: Leaving directory '/build/pirs-2.0.2+dfsg/src' make[3]: Leaving directory '/build/pirs-2.0.2+dfsg/src' make[2]: Leaving directory '/build/pirs-2.0.2+dfsg/src' dh_auto_build --sourcedirectory=src/stator/gcContCvgBias -- CC='$(CXX)' cd src/stator/gcContCvgBias && make -j10 "INSTALL=install --strip-program=true" CC=\$\(CXX\) make[2]: Entering directory '/build/pirs-2.0.2+dfsg/src/stator/gcContCvgBias' g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal self_util.cpp self_util.h g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal main.cpp g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal stat_soap_coverage.h stat_soap_coverage.cpp self_util.cpp: In function 'char toUpper(const char&)': self_util.cpp:182:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ self_util.cpp: In function 'char toLower(const char&)': self_util.cpp:190:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ g++ -o gc_coverage_bias -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal self_util.o main.o stat_soap_coverage.o -Wl,-z,relro -Wl,-z,now -lgzstream -lz make[2]: Leaving directory '/build/pirs-2.0.2+dfsg/src/stator/gcContCvgBias' make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' dh_auto_test -O--sourcedirectory=src cd src && make -j10 check VERBOSE=1 make[1]: Entering directory '/build/pirs-2.0.2+dfsg/src' Making check in pirs make[2]: Entering directory '/build/pirs-2.0.2+dfsg/src/pirs' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/pirs-2.0.2+dfsg/src/pirs' make[2]: Entering directory '/build/pirs-2.0.2+dfsg/src' make[2]: Leaving directory '/build/pirs-2.0.2+dfsg/src' make[1]: Leaving directory '/build/pirs-2.0.2+dfsg/src' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --sourcedirectory=src dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src debian/rules override_dh_auto_install make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_auto_install --sourcedirectory=src/stator/gcContCvgBias make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_install mkdir -p debian/pirs/usr/lib/pirs find src -name "*.pl" -exec cp -a \{\} debian/pirs/usr/lib/pirs \; rm -f debian/pirs/usr/lib/pirs/autobam.pl # Fix perl interpreter path for pl in `grep -Rl '#![/usr]*/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#![/usr]*/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' debian/rules override_dh_installdocs-arch make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_installdocs -a cp -a src/stator/readme.txt debian/pirs/usr/share/doc/pirs/strator_readme.txt make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' dh_installdocs -O--sourcedirectory=src -Npirs debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_installchangelogs NEWS make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' dh_installinit -O--sourcedirectory=src dh_perl -O--sourcedirectory=src debian/rules override_dh_link-arch make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_link -a for pl in debian/pirs/usr/lib/pirs/*.pl ; do \ plname=`basename ${pl}` ; \ ln -s ../lib/pirs/${plname} debian/pirs/usr/bin/`basename ${plname} .pl` ; \ done make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' dh_link -O--sourcedirectory=src -Npirs dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src debian/rules override_dh_fixperms make[1]: Entering directory '/build/pirs-2.0.2+dfsg' dh_fixperms find debian/*/usr/lib -name "*.pl" -exec chmod +x \{\} \; make[1]: Leaving directory '/build/pirs-2.0.2+dfsg' dh_missing -O--sourcedirectory=src dh_strip -O--sourcedirectory=src dh_makeshlibs -O--sourcedirectory=src dh_shlibdeps -O--sourcedirectory=src dh_installdeb -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dpkg-gencontrol: warning: package pirs: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package pirs: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'pirs-profiles' in '../pirs-profiles_2.0.2+dfsg-8_all.deb'. dpkg-deb: building package 'pirs-examples' in '../pirs-examples_2.0.2+dfsg-8_all.deb'. dpkg-deb: building package 'pirs' in '../pirs_2.0.2+dfsg-8_i386.deb'. dpkg-deb: building package 'pirs-dbgsym' in '../pirs-dbgsym_2.0.2+dfsg-8_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../pirs_2.0.2+dfsg-8_i386.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/10246 and its subdirectories I: Current time: Mon Jul 27 23:01:54 -12 2020 I: pbuilder-time-stamp: 1595934114 Tue Jul 28 11:01:55 UTC 2020 I: 1st build successful. Starting 2nd build on remote node profitbricks-build6-i386.debian.net. Tue Jul 28 11:01:55 UTC 2020 I: Preparing to do remote build '2' on profitbricks-build6-i386.debian.net. Tue Jul 28 11:02:34 UTC 2020 I: Deleting $TMPDIR on profitbricks-build6-i386.debian.net. Tue Jul 28 11:02:35 UTC 2020 I: pirs_2.0.2+dfsg-8_i386.changes: Format: 1.8 Date: Sun, 12 May 2019 09:51:09 +0200 Source: pirs Binary: pirs pirs-dbgsym pirs-examples pirs-profiles Architecture: i386 all Version: 2.0.2+dfsg-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Helmut Grohne Description: pirs - Profile based Illumina pair-end Reads Simulator pirs-examples - profile basd Illumina pair-end Reads Simulator (example data) pirs-profiles - profile basd Illumina pair-end Reads Simulator (profile data) Closes: 928856 Changes: pirs (2.0.2+dfsg-8) unstable; urgency=medium . * Team upload. * Fix FTCBFS: (Closes: #928856) + Let dh_auto_build pass cross tools to make. + Pass C++ compiler as CC. Checksums-Sha1: 9cf1c690e8d943650f73a943a29bad6dc3a09024 399324 pirs-dbgsym_2.0.2+dfsg-8_i386.deb 137f3331b5f23daf2dc83745272253c184881dd8 1948676 pirs-examples_2.0.2+dfsg-8_all.deb f23524e2298e41673f43fac2323514325aa68254 2566020 pirs-profiles_2.0.2+dfsg-8_all.deb fe13296a79b7fb8644031bec6f46cdc60034ce79 5331 pirs_2.0.2+dfsg-8_i386.buildinfo 0e835ec67ec707ce5845a56eccac3979077583ed 119784 pirs_2.0.2+dfsg-8_i386.deb Checksums-Sha256: e48365e571f751c25354f5ee489a69e33dc9bb48d053814c69d2b042f46d6b35 399324 pirs-dbgsym_2.0.2+dfsg-8_i386.deb 24184206a2fdd526c4e65c1da96866311cf65857e3f5cb8e6a36ae327c045b5b 1948676 pirs-examples_2.0.2+dfsg-8_all.deb 9b90757061a6fd6f0af244829c887318bcb1dd56e8d35af8ea4dfe6dbbe8ba16 2566020 pirs-profiles_2.0.2+dfsg-8_all.deb cb3c8f139b9d8d3e97b279e8d800a8ff0f8bf5f9f23bb744d2c10aaee97a0dab 5331 pirs_2.0.2+dfsg-8_i386.buildinfo 4bd9af991c3daad6c2407b81cb5be2105f383effee402095c7f02bc33495bd04 119784 pirs_2.0.2+dfsg-8_i386.deb Files: fddd0664063dae33a2e7385e90d01185 399324 debug optional pirs-dbgsym_2.0.2+dfsg-8_i386.deb bd28f0cf2d1b3816355e823e9fd67326 1948676 science optional pirs-examples_2.0.2+dfsg-8_all.deb f5ab72b921470246e4a0e556512caeac 2566020 science optional pirs-profiles_2.0.2+dfsg-8_all.deb 55788e1e93326d14301aa986e339954e 5331 science optional pirs_2.0.2+dfsg-8_i386.buildinfo 38673812c1d6e7774147eed46fa04ce2 119784 science optional pirs_2.0.2+dfsg-8_i386.deb Tue Jul 28 11:02:36 UTC 2020 I: diffoscope 153 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.PjDF8j8XrZ/pirs_2.0.2+dfsg-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.PjDF8j8XrZ/pirs_2.0.2+dfsg-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.PjDF8j8XrZ/pirs_2.0.2+dfsg-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.PjDF8j8XrZ/b1/pirs_2.0.2+dfsg-8_i386.changes /srv/reproducible-results/rbuild-debian/tmp.PjDF8j8XrZ/b2/pirs_2.0.2+dfsg-8_i386.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: 0.311s) 0.311s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.085s) 0.085s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Tue Jul 28 11:02:38 UTC 2020 I: diffoscope 153 found no differences in the changes files, and a .buildinfo file also exists. Tue Jul 28 11:02:38 UTC 2020 I: pirs from buster built successfully and reproducibly on i386. Tue Jul 28 11:02:39 UTC 2020 I: Submitting .buildinfo files to external archives: Tue Jul 28 11:02:39 UTC 2020 I: Submitting 8.0K b1/pirs_2.0.2+dfsg-8_i386.buildinfo.asc Tue Jul 28 11:02:41 UTC 2020 I: Submitting 8.0K b2/pirs_2.0.2+dfsg-8_i386.buildinfo.asc Tue Jul 28 11:02:41 UTC 2020 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Jul 28 11:02:41 UTC 2020 I: Done submitting .buildinfo files. Tue Jul 28 11:02:41 UTC 2020 I: Removing signed pirs_2.0.2+dfsg-8_i386.buildinfo.asc files: removed './b1/pirs_2.0.2+dfsg-8_i386.buildinfo.asc' removed './b2/pirs_2.0.2+dfsg-8_i386.buildinfo.asc'