Tue Jun 6 14:58:20 UTC 2023 I: starting to build phylonium/bookworm/i386 on jenkins on '2023-06-06 14:58' Tue Jun 6 14:58:20 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_3/372/console.log Tue Jun 6 14:58:20 UTC 2023 I: Downloading source for bookworm/phylonium=1.6-1 --2023-06-06 14:58:21-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/phylonium/phylonium_1.6-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2322 (2.3K) [text/prs.lines.tag] Saving to: ‘phylonium_1.6-1.dsc’ 0K .. 100% 166M=0s 2023-06-06 14:58:21 (166 MB/s) - ‘phylonium_1.6-1.dsc’ saved [2322/2322] Tue Jun 6 14:58:21 UTC 2023 I: phylonium_1.6-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: phylonium Binary: phylonium Architecture: any Version: 1.6-1 Maintainer: Debian Med Packaging Team Uploaders: Fabian Klötzl , Nilesh Patra Homepage: https://github.com/EvolBioInf/phylonium Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/phylonium Vcs-Git: https://salsa.debian.org/med-team/phylonium.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), libdivsufsort-dev Package-List: phylonium deb science optional arch=any Checksums-Sha1: 7245812e1aa646235d2c3238a87b19c1f9d045dd 44071659 phylonium_1.6.orig-debian-tests-data.tar.gz 7375d44907995ea79c97fbefd7bf06604dc18610 417921 phylonium_1.6.orig.tar.gz 9cc55eac7c5bbcf9187f8d0c59c66d23e0fd7b32 4920 phylonium_1.6-1.debian.tar.xz Checksums-Sha256: 004b12f29d12ff61334ff18919db62d3557aba3b72eaa1c2a3c7e1091cd0197b 44071659 phylonium_1.6.orig-debian-tests-data.tar.gz 5d5279090fc9efd81710477c8e57a162d257d4104ba6eb86718a21a1da48dc3e 417921 phylonium_1.6.orig.tar.gz 73d6e914fe9b9ea6bc20f0d6bd4f61df0f52c9766bfffea97bcb8f300730c823 4920 phylonium_1.6-1.debian.tar.xz Files: 21a3be06d87270c5bc287173f53b1a94 44071659 phylonium_1.6.orig-debian-tests-data.tar.gz be31627f68b50c651216042810f105bc 417921 phylonium_1.6.orig.tar.gz f81910f0ad67c83a2a00478a477bb849 4920 phylonium_1.6-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAmHNtvUSHG5pbGVzaEBk ZWJpYW4ub3JnAAoJEAC650s0M2nxTIgP/0kegCjK0W0zrIKz5Y2t+2zjb3PUe2dX R3PjF0CInrfGLauIQZYNfPxR97ruDIQtzjSgVrlUALMuuvYCcnzfYO+4iVXaoWmW ntqDjjTnU1FG4E1pAkA8ieLrEQK3OJZutUPEhbLh9us7gYMJwYLVgIODIv6xyotu n+8QPpnVKxZzLX2w7Ng1uz3DPdhTVDX0R5RqZ0oWLVEOqBOmxgEWkjXWx67uwrUZ Tb51/V6Mlkgv/E+WVpWNEGlCkW5PtoghITxogTpAmRvPuWphBoypjL7gG9W0OjCK OwQI9ECuHwCn6gSz8DNnIiOBSeu/bQlTxJsS6DOb7aM87JDxjnZR8zUxKAR3/gXl GkyuflTtPIabFM5k5+TWuN39+ztFjb6sZvIOdjpoL03zFTI81A8Tjwt7GnSLiphI WSK+MYmQeDgd45VL5WH4uOqcOyqVQQh7058qoOM/eY616tPSeI4eqpTEXPCMzhxz if32G5LDeGHMSoSTw3UvXgPlSby+zG8QkDR7F3uTvjqT+4j5C96lEzdFZUEjPFna x+zdF5bm19kIGm2+Zk4xoN6knZeSogO4+asVzUD40nuSGCl12eMcaQWQBw38lJtn pduA63EMU9XZdxIy9/HgtF/i8fC7HgOcR/i5GNuRjoQn8kVBBcFua1uo2WFUnXxx j6nBoeInYTvq =3mpH -----END PGP SIGNATURE----- Tue Jun 6 14:58:21 UTC 2023 I: Checking whether the package is not for us Tue Jun 6 14:58:21 UTC 2023 I: Starting 1st build on remote node ionos2-i386.debian.net. Tue Jun 6 14:58:21 UTC 2023 I: Preparing to do remote build '1' on ionos2-i386.debian.net. Tue Jun 6 15:03:25 UTC 2023 I: Deleting $TMPDIR on ionos2-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jun 6 02:58:25 -12 2023 I: pbuilder-time-stamp: 1686063505 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [phylonium_1.6-1.dsc] I: copying [./phylonium_1.6.orig-debian-tests-data.tar.gz] I: copying [./phylonium_1.6.orig.tar.gz] I: copying [./phylonium_1.6-1.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Dec 30 01:41:09 2021 -12 gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "nilesh@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./phylonium_1.6-1.dsc: no acceptable signature found dpkg-source: info: extracting phylonium in phylonium-1.6 dpkg-source: info: unpacking phylonium_1.6.orig.tar.gz dpkg-source: info: unpacking phylonium_1.6.orig-debian-tests-data.tar.gz dpkg-source: info: unpacking phylonium_1.6-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/20511/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=8 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='8806c2e1c0e24f1f956c95ee2c5653ed' 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='20511' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.BqQtdQ4L/pbuilderrc_1IT4 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.BqQtdQ4L/b1 --logfile b1/build.log phylonium_1.6-1.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 ionos2-i386 5.10.0-23-686-pae #1 SMP Debian 5.10.179-1 (2023-05-12) i686 GNU/Linux I: ls -l /bin total 6036 -rwxr-xr-x 1 root root 1408088 Apr 23 09:24 bash -rwxr-xr-x 3 root root 38404 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 38404 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 38404 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 17892 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 42920 Sep 20 2022 cat -rwxr-xr-x 1 root root 79816 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 79816 Sep 20 2022 chown -rwxr-xr-x 1 root root 162024 Sep 20 2022 cp -rwxr-xr-x 1 root root 136916 Jan 5 01:20 dash -rwxr-xr-x 1 root root 137160 Sep 20 2022 date -rwxr-xr-x 1 root root 100364 Sep 20 2022 dd -rwxr-xr-x 1 root root 108940 Sep 20 2022 df -rwxr-xr-x 1 root root 162152 Sep 20 2022 dir -rwxr-xr-x 1 root root 87760 Mar 22 22:20 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 38760 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 34664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 84272 Mar 22 22:20 findmnt -rwsr-xr-x 1 root root 30240 Mar 22 20:38 fusermount -rwxr-xr-x 1 root root 218680 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 100952 Apr 9 2022 gzip -rwxr-xr-x 1 root root 21916 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 75756 Sep 20 2022 ln -rwxr-xr-x 1 root root 55600 Mar 22 23:43 login -rwxr-xr-x 1 root root 162152 Sep 20 2022 ls -rwxr-xr-x 1 root root 214568 Mar 22 22:20 lsblk -rwxr-xr-x 1 root root 96328 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 84008 Sep 20 2022 mknod -rwxr-xr-x 1 root root 38792 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 63016 Mar 22 22:20 more -rwsr-xr-x 1 root root 58912 Mar 22 22:20 mount -rwxr-xr-x 1 root root 13856 Mar 22 22:20 mountpoint -rwxr-xr-x 1 root root 157932 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38792 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash -rwxr-xr-x 1 root root 51080 Sep 20 2022 readlink -rwxr-xr-x 1 root root 75720 Sep 20 2022 rm -rwxr-xr-x 1 root root 51080 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 22308 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 133224 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 38760 Sep 20 2022 sleep -rwxr-xr-x 1 root root 87976 Sep 20 2022 stty -rwsr-xr-x 1 root root 83492 Mar 22 22:20 su -rwxr-xr-x 1 root root 38792 Sep 20 2022 sync -rwxr-xr-x 1 root root 598456 Apr 6 02:25 tar -rwxr-xr-x 1 root root 13860 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 120776 Sep 20 2022 touch -rwxr-xr-x 1 root root 34664 Sep 20 2022 true -rwxr-xr-x 1 root root 17892 Mar 22 20:38 ulockmgr_server -rwsr-xr-x 1 root root 30236 Mar 22 22:20 umount -rwxr-xr-x 1 root root 38760 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 162152 Sep 20 2022 vdir -rwxr-xr-x 1 root root 71216 Mar 22 22:20 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/20511/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-compat (= 13), libdivsufsort-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 ... 19599 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. pbuilder-satisfydepends-dummy depends on libdivsufsort-dev; however: Package libdivsufsort-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} 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} libdivsufsort-dev{a} libdivsufsort3{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 19.1 MB of archives. After unpacking 72.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main i386 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main i386 libmagic-mgc i386 1:5.44-3 [305 kB] Get: 3 http://deb.debian.org/debian bookworm/main i386 libmagic1 i386 1:5.44-3 [114 kB] Get: 4 http://deb.debian.org/debian bookworm/main i386 file i386 1:5.44-3 [42.5 kB] Get: 5 http://deb.debian.org/debian bookworm/main i386 gettext-base i386 0.21-12 [162 kB] Get: 6 http://deb.debian.org/debian bookworm/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 7 http://deb.debian.org/debian bookworm/main i386 groff-base i386 1.22.4-10 [932 kB] Get: 8 http://deb.debian.org/debian bookworm/main i386 bsdextrautils i386 2.38.1-5+b1 [90.3 kB] Get: 9 http://deb.debian.org/debian bookworm/main i386 libpipeline1 i386 1.5.7-1 [40.0 kB] Get: 10 http://deb.debian.org/debian bookworm/main i386 man-db i386 2.11.2-2 [1397 kB] Get: 11 http://deb.debian.org/debian bookworm/main i386 m4 i386 1.4.19-3 [294 kB] Get: 12 http://deb.debian.org/debian bookworm/main i386 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian bookworm/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian bookworm/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian bookworm/main i386 autopoint all 0.21-12 [495 kB] Get: 16 http://deb.debian.org/debian bookworm/main i386 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 17 http://deb.debian.org/debian bookworm/main i386 libtool all 2.4.7-5 [517 kB] Get: 18 http://deb.debian.org/debian bookworm/main i386 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian bookworm/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian bookworm/main i386 libsub-override-perl all 0.09-4 [9304 B] Get: 21 http://deb.debian.org/debian bookworm/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 22 http://deb.debian.org/debian bookworm/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 23 http://deb.debian.org/debian bookworm/main i386 libelf1 i386 0.188-2.1 [179 kB] Get: 24 http://deb.debian.org/debian bookworm/main i386 dwz i386 0.15-1 [118 kB] Get: 25 http://deb.debian.org/debian bookworm/main i386 libicu72 i386 72.1-3 [9541 kB] Get: 26 http://deb.debian.org/debian bookworm/main i386 libxml2 i386 2.9.14+dfsg-1.2 [720 kB] Get: 27 http://deb.debian.org/debian bookworm/main i386 gettext i386 0.21-12 [1311 kB] Get: 28 http://deb.debian.org/debian bookworm/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian bookworm/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian bookworm/main i386 debhelper all 13.11.4 [942 kB] Get: 31 http://deb.debian.org/debian bookworm/main i386 libdivsufsort3 i386 2.0.1-5 [49.5 kB] Get: 32 http://deb.debian.org/debian bookworm/main i386 libdivsufsort-dev i386 2.0.1-5 [19.1 kB] Fetched 19.1 MB in 1s (25.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19599 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.44-3_i386.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../02-libmagic1_1%3a5.44-3_i386.deb ... Unpacking libmagic1:i386 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.44-3_i386.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-12_i386.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../05-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.22.4-10_i386.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.38.1-5+b1_i386.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../08-libpipeline1_1.5.7-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.11.2-2_i386.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-3_i386.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../19-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../21-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../22-libelf1_0.188-2.1_i386.deb ... Unpacking libelf1:i386 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1_i386.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:i386. Preparing to unpack .../24-libicu72_72.1-3_i386.deb ... Unpacking libicu72:i386 (72.1-3) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../25-libxml2_2.9.14+dfsg-1.2_i386.deb ... Unpacking libxml2:i386 (2.9.14+dfsg-1.2) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.21-12_i386.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../27-intltool-debian_0.35.0+20060710.6_all.deb ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/phylonium-1.6/ && 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 > ../phylonium_1.6-1_source.changes dpkg-buildpackage: info: source package phylonium dpkg-buildpackage: info: source version 1.6-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Fabian Klötzl dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf configure.ac:11: installing './ar-lib' configure.ac:6: installing './compile' configure.ac:3: installing './install-sh' configure.ac:3: installing './missing' parallel-tests: installing './test-driver' libs/Makefile.am: installing './depcomp' test/Makefile.am:7: warning: source file '$(top_srcdir)/src/esa.cxx' is in a subdirectory, test/Makefile.am:7: but option 'subdir-objects' is disabled automake: warning: possible forward-incompatibility. automake: At least one 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, this automake: behavior may change in a future Automake major version, with object automake: files being placed in the same subdirectory as the corresponding sources. automake: You are advised to start using 'subdir-objects' option throughout your automake: project, to avoid future incompatibilities. test/Makefile.am:7: warning: source file '$(top_srcdir)/src/evo_model.cxx' is in a subdirectory, test/Makefile.am:7: but option 'subdir-objects' is disabled test/Makefile.am:7: warning: source file '$(top_srcdir)/src/process.cxx' is in a subdirectory, test/Makefile.am:7: but option 'subdir-objects' is disabled test/Makefile.am:7: warning: source file '$(top_srcdir)/src/sequence.cxx' is in a subdirectory, test/Makefile.am:7: but option 'subdir-objects' is disabled debian/rules override_dh_auto_configure make[1]: Entering directory '/build/phylonium-1.6' dh_auto_configure -- ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free 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 gcc... gcc 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 the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking for g++... g++ checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking dependency style of g++... none checking whether make sets $(MAKE)... (cached) yes checking how to run the C preprocessor... gcc -E checking for ranlib... ranlib checking for ar... ar checking the archiver (ar) interface... ar checking for g++ option to support OpenMP... -fopenmp checking whether g++ supports C++14 features with -std=gnu++14... yes checking for gcc option to support OpenMP... -fopenmp checking for __attribute__((ifunc))... yes checking for cos in -lm... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for divsufsort.h... yes checking for divsufsort in -ldivsufsort... yes checking for limits.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for stdint.h... (cached) yes checking for inttypes.h... (cached) yes checking for err.h... yes checking for errno.h... yes checking for fcntl.h... yes checking for inline... inline checking for size_t... yes checking for ssize_t... yes checking for int32_t... yes checking for uint8_t... yes checking for _Bool... yes checking for stdbool.h that conforms to C99... yes checking for floor... yes checking for pow... yes checking for sqrt... yes checking for strdup... yes checking for strerror... yes checking for strtoul... yes checking for strtod... yes checking for reallocarray... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating libs/Makefile config.status: creating Makefile config.status: creating man/phylonium.1 config.status: creating src/Makefile config.status: creating test/Makefile config.status: creating config.h config.status: executing depfiles commands make[1]: Leaving directory '/build/phylonium-1.6' dh_auto_build make -j8 make[1]: Entering directory '/build/phylonium-1.6' make all-recursive make[2]: Entering directory '/build/phylonium-1.6' Making all in libs make[3]: Entering directory '/build/phylonium-1.6/libs' rm -f libcompat.a ar cru libcompat.a ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcompat.a gcc -DHAVE_CONFIG_H -I. -I.. -I../opt -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libpfasta_a-pfasta.o `test -f 'pfasta.c' || echo './'`pfasta.c gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o revseqcmp.o revseqcmp.c gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -mpopcnt -mssse3 -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o librevseqcmp_ssse3_a-revseqcmp_ssse3.o `test -f 'revseqcmp_ssse3.c' || echo './'`revseqcmp_ssse3.c gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -mpopcnt -mavx2 -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o librevseqcmp_avx2_a-revseqcmp_avx2.o `test -f 'revseqcmp_avx2.c' || echo './'`revseqcmp_avx2.c gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o seqcmp.o seqcmp.c gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -mpopcnt -msse2 -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libseqcmp_sse2_a-seqcmp_sse2.o `test -f 'seqcmp_sse2.c' || echo './'`seqcmp_sse2.c gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -mpopcnt -mavx2 -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libseqcmp_avx2_a-seqcmp_avx2.o `test -f 'seqcmp_avx2.c' || echo './'`seqcmp_avx2.c gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -mpopcnt -mavx512bw -mavx512vl -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libseqcmp_avx512_a-seqcmp_avx512.o `test -f 'seqcmp_avx512.c' || echo './'`seqcmp_avx512.c rm -f librevseqcmp_ssse3.a ar cru librevseqcmp_ssse3.a librevseqcmp_ssse3_a-revseqcmp_ssse3.o ar: rm -f libseqcmp_sse2.a ar cru libseqcmp_sse2.a libseqcmp_sse2_a-seqcmp_sse2.o `u' modifier ignored since `D' is the default (see `U') ar: `u' modifier ignored since `D' is the default (see `U') ranlib librevseqcmp_ssse3.a ranlib libseqcmp_sse2.a rm -f libpfasta.a ar cru libpfasta.a libpfasta_a-pfasta.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libpfasta.a rm -f libseqcmp_avx512.a ar cru libseqcmp_avx512.a libseqcmp_avx512_a-seqcmp_avx512.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libseqcmp_avx512.a rm -f librevseqcmp_avx2.a rm -f libseqcmp_avx2.a ar cru librevseqcmp_avx2.a librevseqcmp_avx2_a-revseqcmp_avx2.o ar: `u' modifier ignored since `D' is the default (see `U') ar cru libseqcmp_avx2.a libseqcmp_avx2_a-seqcmp_avx2.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib librevseqcmp_avx2.a ranlib libseqcmp_avx2.a rm -f librevseqcmp.a ar cru librevseqcmp.a revseqcmp.o librevseqcmp_ssse3.a librevseqcmp_avx2.a ar: `u' modifier ignored since `D' is the default (see `U') rm -f libseqcmp.a ranlib librevseqcmp.a ar cru libseqcmp.a seqcmp.o libseqcmp_sse2.a libseqcmp_avx2.a libseqcmp_avx512.a ar: `u' modifier ignored since `D' is the default (see `U') ranlib libseqcmp.a make[3]: Leaving directory '/build/phylonium-1.6/libs' Making all in src make[3]: Entering directory '/build/phylonium-1.6/src' g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++14 -Wall -Wextra -I../libs -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -O2 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o phylonium-phylonium.o `test -f 'phylonium.cxx' || echo './'`phylonium.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++14 -Wall -Wextra -I../libs -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -O2 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o phylonium-io.o `test -f 'io.cxx' || echo './'`io.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++14 -Wall -Wextra -I../libs -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -O2 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o phylonium-sequence.o `test -f 'sequence.cxx' || echo './'`sequence.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++14 -Wall -Wextra -I../libs -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -O2 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o phylonium-esa.o `test -f 'esa.cxx' || echo './'`esa.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++14 -Wall -Wextra -I../libs -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -O2 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o phylonium-process.o `test -f 'process.cxx' || echo './'`process.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -fopenmp -std=c++14 -Wall -Wextra -I../libs -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -fopenmp -O2 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o phylonium-evo_model.o `test -f 'evo_model.cxx' || echo './'`evo_model.cxx esa.cxx: In constructor 'esa::esa(const sequence&)': esa.cxx:63:55: warning: narrowing conversion of '(((& seq)->sequence::size() * 2) + 1)' from 'unsigned int' to 'int' [-Wnarrowing] 63 | esa::esa(const sequence &seq) : m_size{seq.size() * 2 + 1} | ~~~~~~~~~~~~~~~^~~ g++ -std=gnu++14 -fopenmp -O2 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o phylonium phylonium-phylonium.o phylonium-io.o phylonium-sequence.o phylonium-esa.o phylonium-process.o phylonium-evo_model.o ../libs/libcompat.a ../libs/libpfasta.a ../libs/librevseqcmp.a ../libs/libseqcmp.a ../libs/librevseqcmp_avx2.a ../libs/librevseqcmp_ssse3.a ../libs/libseqcmp_avx2.a ../libs/libseqcmp_sse2.a ../libs/libseqcmp_avx512.a -ldivsufsort -lm make[3]: Leaving directory '/build/phylonium-1.6/src' Making all in test make[3]: Entering directory '/build/phylonium-1.6/test' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/phylonium-1.6/test' Making all in . make[3]: Entering directory '/build/phylonium-1.6' make[3]: Leaving directory '/build/phylonium-1.6' make[2]: Leaving directory '/build/phylonium-1.6' make[1]: Leaving directory '/build/phylonium-1.6' dh_auto_test make -j8 check "TESTSUITEFLAGS=-j8 --verbose" VERBOSE=1 make[1]: Entering directory '/build/phylonium-1.6' Making check in libs make[2]: Entering directory '/build/phylonium-1.6/libs' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/phylonium-1.6/libs' Making check in src make[2]: Entering directory '/build/phylonium-1.6/src' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/phylonium-1.6/src' Making check in test make[2]: Entering directory '/build/phylonium-1.6/test' make simf unittests make[3]: Entering directory '/build/phylonium-1.6/test' g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -std=c++14 -Wall -Wextra -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o simf-simf.o `test -f 'simf.cxx' || echo './'`simf.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -I../src -I../libs -std=c++14 -Wall -Wextra -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unittests-esa.o `test -f '../src/esa.cxx' || echo './'`../src/esa.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -I../src -I../libs -std=c++14 -Wall -Wextra -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unittests-evo_model.o `test -f '../src/evo_model.cxx' || echo './'`../src/evo_model.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -I../src -I../libs -std=c++14 -Wall -Wextra -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unittests-process.o `test -f '../src/process.cxx' || echo './'`../src/process.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -I../src -I../libs -std=c++14 -Wall -Wextra -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unittests-sequence.o `test -f '../src/sequence.cxx' || echo './'`../src/sequence.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -I../src -I../libs -std=c++14 -Wall -Wextra -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unittests-Tmain.o `test -f 'Tmain.cxx' || echo './'`Tmain.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -I../src -I../libs -std=c++14 -Wall -Wextra -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unittests-Tprocess.o `test -f 'Tprocess.cxx' || echo './'`Tprocess.cxx g++ -std=gnu++14 -DHAVE_CONFIG_H -I. -I.. -I../src -I../libs -std=c++14 -Wall -Wextra -Wdate-time -D_FORTIFY_SOURCE=2 -fms-extensions -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unittests-Tsequence.o `test -f 'Tsequence.cxx' || echo './'`Tsequence.cxx ../src/process.cxx:420: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 420 | #pragma omp parallel for num_threads(THREADS) | ../src/process.cxx:432: warning: ignoring '#pragma omp critical' [-Wunknown-pragmas] 432 | #pragma omp critical | ../src/process.cxx:435: warning: ignoring '#pragma omp atomic' [-Wunknown-pragmas] 435 | #pragma omp atomic | ../src/process.cxx:441: warning: ignoring '#pragma omp critical' [-Wunknown-pragmas] 441 | #pragma omp critical | ../src/process.cxx:511: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas] 511 | #pragma omp parallel for num_threads(THREADS) | ../src/process.cxx:518: warning: ignoring '#pragma omp atomic' [-Wunknown-pragmas] 518 | #pragma omp atomic | ../src/process.cxx:526: warning: ignoring '#pragma omp atomic' [-Wunknown-pragmas] 526 | #pragma omp atomic read | ../src/process.cxx:532: warning: ignoring '#pragma omp critical' [-Wunknown-pragmas] 532 | #pragma omp critical | ../src/esa.cxx: In constructor 'esa::esa(const sequence&)': ../src/esa.cxx:63:55: warning: narrowing conversion of '(((& seq)->sequence::size() * 2) + 1)' from 'unsigned int' to 'int' [-Wnarrowing] 63 | esa::esa(const sequence &seq) : m_size{seq.size() * 2 + 1} | ~~~~~~~~~~~~~~~^~~ g++ -std=gnu++14 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o simf simf-simf.o -ldivsufsort -lm g++ -std=gnu++14 -ggdb -g -O2 -ffile-prefix-map=/build/phylonium-1.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o unittests unittests-esa.o unittests-evo_model.o unittests-process.o unittests-sequence.o unittests-Tmain.o unittests-Tprocess.o unittests-Tsequence.o ../libs/libcompat.a ../libs/libpfasta.a ../libs/librevseqcmp.a ../libs/libseqcmp.a ../libs/librevseqcmp_avx2.a ../libs/librevseqcmp_ssse3.a ../libs/libseqcmp_avx2.a ../libs/libseqcmp_sse2.a ../libs/libseqcmp_avx512.a -ldivsufsort -lm make[3]: Leaving directory '/build/phylonium-1.6/test' make[2]: Leaving directory '/build/phylonium-1.6/test' Making check in . make[2]: Entering directory '/build/phylonium-1.6' make check-TESTS make[3]: Entering directory '/build/phylonium-1.6' make[4]: Entering directory '/build/phylonium-1.6' PASS: test/unittests PASS: test/simple.sh ============================================================================ Testsuite summary for phylonium 1.6 ============================================================================ # TOTAL: 2 # PASS: 2 # SKIP: 0 # XFAIL: 0 # FAIL: 0 # XPASS: 0 # ERROR: 0 ============================================================================ make[4]: Leaving directory '/build/phylonium-1.6' make[3]: Leaving directory '/build/phylonium-1.6' make[2]: Leaving directory '/build/phylonium-1.6' make[1]: Leaving directory '/build/phylonium-1.6' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/phylonium/ make -j8 install DESTDIR=/build/phylonium-1.6/debian/phylonium AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/phylonium-1.6' Making install in libs make[2]: Entering directory '/build/phylonium-1.6/libs' make[3]: Entering directory '/build/phylonium-1.6/libs' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/phylonium-1.6/libs' make[2]: Leaving directory '/build/phylonium-1.6/libs' Making install in src make[2]: Entering directory '/build/phylonium-1.6/src' make[3]: Entering directory '/build/phylonium-1.6/src' /bin/mkdir -p '/build/phylonium-1.6/debian/phylonium/usr/bin' make[3]: Nothing to be done for 'install-data-am'. /usr/bin/install -c phylonium '/build/phylonium-1.6/debian/phylonium/usr/bin' make[3]: Leaving directory '/build/phylonium-1.6/src' make[2]: Leaving directory '/build/phylonium-1.6/src' Making install in test make[2]: Entering directory '/build/phylonium-1.6/test' make[3]: Entering directory '/build/phylonium-1.6/test' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/phylonium-1.6/test' make[2]: Leaving directory '/build/phylonium-1.6/test' Making install in . make[2]: Entering directory '/build/phylonium-1.6' make[3]: Entering directory '/build/phylonium-1.6' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/build/phylonium-1.6/debian/phylonium/usr/share/doc/phylonium' /usr/bin/install -c -m 644 documentation/manual.pdf '/build/phylonium-1.6/debian/phylonium/usr/share/doc/phylonium' /bin/mkdir -p '/build/phylonium-1.6/debian/phylonium/usr/share/man/man1' /usr/bin/install -c -m 644 man/phylonium.1 '/build/phylonium-1.6/debian/phylonium/usr/share/man/man1' make[3]: Leaving directory '/build/phylonium-1.6' make[2]: Leaving directory '/build/phylonium-1.6' make[1]: Leaving directory '/build/phylonium-1.6' dh_installdocs dh_installdocs: warning: Could not parse doc-base for doc-base Document id; skipping dh_installchangelogs dh_installman 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 'phylonium' in '../phylonium_1.6-1_i386.deb'. dpkg-deb: building package 'phylonium-dbgsym' in '../phylonium-dbgsym_1.6-1_i386.deb'. dpkg-genbuildinfo --build=binary -O../phylonium_1.6-1_i386.buildinfo dpkg-genchanges --build=binary -O../phylonium_1.6-1_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) dpkg-genchanges: info: including full 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/20511 and its subdirectories I: Current time: Tue Jun 6 03:03:23 -12 2023 I: pbuilder-time-stamp: 1686063803 Tue Jun 6 15:03:25 UTC 2023 I: 1st build successful. Starting 2nd build on remote node ionos16-i386.debian.net. Tue Jun 6 15:03:25 UTC 2023 I: Preparing to do remote build '2' on ionos16-i386.debian.net. Tue Jun 6 15:05:39 UTC 2023 I: Deleting $TMPDIR on ionos16-i386.debian.net. Tue Jun 6 15:05:39 UTC 2023 I: phylonium_1.6-1_i386.changes: Format: 1.8 Date: Thu, 30 Dec 2021 19:03:59 +0530 Source: phylonium Binary: phylonium phylonium-dbgsym Architecture: i386 Version: 1.6-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Fabian Klötzl Description: phylonium - Fast and Accurate Estimation of Evolutionary Distances Changes: phylonium (1.6-1) unstable; urgency=medium . [ Fabian Klötzl ] * New upstream version 1.6 . [ Nilesh Patra ] * Bump Standards-Version to 4.6.0 (no changes needed) Checksums-Sha1: 9f8699ef80b10e99222e4efb89b5cb5ce3908a39 535944 phylonium-dbgsym_1.6-1_i386.deb 92950437e41daacc735138b1c054e0daf7501313 5122 phylonium_1.6-1_i386.buildinfo 0ae1e1645197e23edab6610c46b25559f5585acf 293840 phylonium_1.6-1_i386.deb Checksums-Sha256: dd849dee0e35bd44e940ab3b350ff6ab0c47eaf6907a338dca77a3a7b292f004 535944 phylonium-dbgsym_1.6-1_i386.deb e751c9ba9ef594e28162a41c0c2b248e33084678051b71b7f0ab1c45de74819a 5122 phylonium_1.6-1_i386.buildinfo 35f03849f5382aae7913958c87c35300494adcdc7069883eac581f2f208a529f 293840 phylonium_1.6-1_i386.deb Files: f3de2a87545900999be74243a67e9702 535944 debug optional phylonium-dbgsym_1.6-1_i386.deb ca852d70404fe60dfd9c82ca85a95211 5122 science optional phylonium_1.6-1_i386.buildinfo 535594da5459aef0691636912f06b95e 293840 science optional phylonium_1.6-1_i386.deb Tue Jun 6 15:05:40 UTC 2023 I: diffoscope 242 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.BqQtdQ4L/phylonium_1.6-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.BqQtdQ4L/phylonium_1.6-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.BqQtdQ4L/phylonium_1.6-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.BqQtdQ4L/b1/phylonium_1.6-1_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.BqQtdQ4L/b2/phylonium_1.6-1_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: 0.406s) 0.406s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.025s) 0.025s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Tue Jun 6 15:05:41 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Tue Jun 6 15:05:41 UTC 2023 I: phylonium from bookworm built successfully and reproducibly on i386. Tue Jun 6 15:05:43 UTC 2023 I: Submitting .buildinfo files to external archives: Tue Jun 6 15:05:43 UTC 2023 I: Submitting 8.0K b1/phylonium_1.6-1_i386.buildinfo.asc Tue Jun 6 15:05:44 UTC 2023 I: Submitting 8.0K b2/phylonium_1.6-1_i386.buildinfo.asc Tue Jun 6 15:05:45 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Jun 6 15:05:45 UTC 2023 I: Done submitting .buildinfo files. Tue Jun 6 15:05:45 UTC 2023 I: Removing signed phylonium_1.6-1_i386.buildinfo.asc files: removed './b1/phylonium_1.6-1_i386.buildinfo.asc' removed './b2/phylonium_1.6-1_i386.buildinfo.asc'