Sun Jan 23 15:10:40 UTC 2022 I: starting to build kraken2/bullseye/amd64 on jenkins on '2022-01-23 15:10' Sun Jan 23 15:10:40 UTC 2022 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_15/4710/console.log Sun Jan 23 15:10:40 UTC 2022 I: Downloading source for bullseye/kraken2=2.1.1-1 --2022-01-23 15:10:41-- http://cdn-fastly.deb.debian.org/debian/pool/main/k/kraken2/kraken2_2.1.1-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1965 (1.9K) Saving to: ‘kraken2_2.1.1-1.dsc’ 0K . 100% 132M=0s 2022-01-23 15:10:41 (132 MB/s) - ‘kraken2_2.1.1-1.dsc’ saved [1965/1965] Sun Jan 23 15:10:41 UTC 2022 I: kraken2_2.1.1-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: kraken2 Binary: kraken2 Architecture: any Version: 2.1.1-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://www.ccb.jhu.edu/software/kraken2/ Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/kraken2 Vcs-Git: https://salsa.debian.org/med-team/kraken2.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: kraken2 deb science optional arch=any Checksums-Sha1: d87b52983028436582ea0518b7dde6557a8b38d3 193878 kraken2_2.1.1.orig.tar.gz 8bab97bc8160fafab265b0f739dda335abf9ef77 339824 kraken2_2.1.1-1.debian.tar.xz Checksums-Sha256: 8f3e928cdb32b9e8e6f55b44703d1557b2a5fc3f30f63e8d16e465e19a81dee4 193878 kraken2_2.1.1.orig.tar.gz f087fa8b75169186d24362a599f3249368e69102f8205359760004a145c223e0 339824 kraken2_2.1.1-1.debian.tar.xz Files: 4eedbc664d0dfa12f2df899bdbd36fa8 193878 kraken2_2.1.1.orig.tar.gz dab8e1fb44ba42709e551a4091527fd4 339824 kraken2_2.1.1-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAl+tqRIUHG5wYXRyYTk3 NEBnbWFpbC5jb20ACgkQALrnSzQzafGuEA//TvaA2SGeRezwJdUvrDnKsk/2xT0w XHvW295EDEAml59untxPAuAD++Ryf/owBduoPG6v0fkuXusuqPnDNVXhxrwlu/Th YGHSc9CumFnNAwiQQzSkgdhXkz8R6lu0wkUoKMITyzWKShB3hPQLgKDlnqF/gOtU gpavZG8Kilisf5Twn0wmY6PslJwDWoRoM8nzPnS4qZYFn/NdAr4c4OkskaGF007L ZM24RwwruRwzpDxNPZ0cQ75wksOm2uKqd0YfWeA/moEgETPE1cNrDhha0BjA1OEO J3vFsRq++UM7SHcpWFa9GJxKiqPQXJ22R9m3FnP4ruEEW0Qhx+o/YHODaWY7GHDT xtquCrwzFnarcYS9gHA8VJ1t5vjLEyhfcAYNvTWkwjxkVOd6Dp8XtSenMCw2ztZB mfq7Df9ZP4ItPIwDb3myZjsAZXS07zHkNRUPooDYD4aUT2IseAhPYFtGFYT358li 0RgPoENgBgQc40HyhmI5CB/J6Xzh02uMX3hhQ2GLo0PRMS2/j8WUmEpeP8Ykzdqe YOa6Ef03NwMzQw1zoT79pD8qSLFe5F8fawSHt89onPw+YB1ZzVDe1/J0cW2WMLQQ r07Lc2JAt94KlCklUjOe9UKjgB8lKtJ9OE0AoxphWaiPi0j2kOw+19b2Y0yiKc0P sgeHzaQUehzLG40= =yTNF -----END PGP SIGNATURE----- Sun Jan 23 15:10:41 UTC 2022 I: Checking whether the package is not for us Sun Jan 23 15:10:41 UTC 2022 I: Starting 1st build on remote node ionos11-amd64.debian.net. Sun Jan 23 15:10:41 UTC 2022 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Sun Jan 23 15:11:15 UTC 2022 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Jan 23 03:10:42 -12 2022 I: pbuilder-time-stamp: 1642950642 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [kraken2_2.1.1-1.dsc] I: copying [./kraken2_2.1.1.orig.tar.gz] I: copying [./kraken2_2.1.1-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.ms13b1KR/trustedkeys.kbx': General error gpgv: Signature made Thu Nov 12 09:28:50 2020 -12 gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "npatra974@gmail.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./kraken2_2.1.1-1.dsc dpkg-source: info: extracting kraken2 in kraken2-2.1.1 dpkg-source: info: unpacking kraken2_2.1.1.orig.tar.gz dpkg-source: info: unpacking kraken2_2.1.1-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_install.patch dpkg-source: info: applying hardening+debug_options.patch dpkg-source: info: applying fix_reading_fasta.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1152719/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=15' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='3b793844852e4d75bbeb623342b52329' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='1152719' 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.IAqd3a3Qdk/pbuilderrc_csrs --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.IAqd3a3Qdk/b1 --logfile b1/build.log kraken2_2.1.1-1.dsc' SUDO_GID='111' SUDO_UID='106' 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 ionos11-amd64 5.10.0-11-amd64 #1 SMP Debian 5.10.92-1 (2022-01-18) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 4 08:25 bash -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash -rwxr-xr-x 1 root root 113664 Sep 23 2020 date -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd -rwxr-xr-x 1 root root 93936 Sep 23 2020 df -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir -rwxr-xr-x 1 root root 84440 Jul 28 07:09 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 28 07:09 findmnt -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 2 2021 gzip -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln -rwxr-xr-x 1 root root 56952 Feb 7 2020 login -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls -rwxr-xr-x 1 root root 149736 Jul 28 07:09 lsblk -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 59632 Jul 28 07:09 more -rwsr-xr-x 1 root root 55528 Jul 28 07:09 mount -rwxr-xr-x 1 root root 18664 Jul 28 07:09 mountpoint -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jan 20 21:25 sh -> dash -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty -rwsr-xr-x 1 root root 71912 Jul 28 07:09 su -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync -rwxr-xr-x 1 root root 531928 Feb 16 2021 tar -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch -rwxr-xr-x 1 root root 39680 Sep 23 2020 true -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jul 28 07:09 umount -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 28 07:09 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/1152719/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: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu67{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsigsegv2{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 31 newly installed, 0 to remove and 0 not upgraded. Need to get 18.3 MB of archives. After unpacking 67.7 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Fetched 18.3 MB in 0s (62.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_amd64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../03-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../05-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../06-libmagic-mgc_1%3a5.39-3_amd64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../07-libmagic1_1%3a5.39-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../08-file_1%3a5.39-3_amd64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../09-gettext-base_0.21-4_amd64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../10-libsigsegv2_2.13-1_amd64.deb ... Unpacking libsigsegv2:amd64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.18-5_amd64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../20-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../21-libfile-stripnondeterminism-perl_1.12.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../22-dh-strip-nondeterminism_1.12.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.12.0-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../23-libelf1_0.183-1_amd64.deb ... Unpacking libelf1:amd64 (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.13+20210201-1_amd64.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package libicu67:amd64. Preparing to unpack .../25-libicu67_67.1-7_amd64.deb ... Unpacking libicu67:amd64 (67.1-7) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../26-libxml2_2.9.10+dfsg-6.7_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-6.7) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.21-4_amd64.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libelf1:amd64 (0.183-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up m4 (1.4.18-5) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/kraken2-2.1.1/ && 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 > ../kraken2_2.1.1-1_source.changes dpkg-buildpackage: info: source package kraken2 dpkg-buildpackage: info: source version 2.1.1-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src dh_auto_clean -O--sourcedirectory=src cd src && make -j15 clean make[1]: Entering directory '/build/kraken2-2.1.1/src' rm -f *.o estimate_capacity build_db classify dump_table lookup_accession_numbers make[1]: Leaving directory '/build/kraken2-2.1.1/src' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src dh_auto_build -O--sourcedirectory=src cd src && make -j15 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/kraken2-2.1.1/src' g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o estimate_capacity.o estimate_capacity.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o seqreader.o seqreader.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mmscanner.o mmscanner.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o omp_hack.o omp_hack.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o utilities.o utilities.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o build_db.o build_db.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mmap_file.o mmap_file.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o compact_hash.o compact_hash.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o taxonomy.o taxonomy.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o classify.o classify.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o reports.o reports.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o hyperloglogplus.o hyperloglogplus.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o aa_translate.o aa_translate.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o dump_table.o dump_table.cc g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lookup_accession_numbers.o lookup_accession_numbers.cc compact_hash.cc: In constructor 'kraken2::CompactHashTable::CompactHashTable(size_t, size_t, size_t)': compact_hash.cc:30:27: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] 30 | } catch (std::bad_alloc ex) { | ^~ g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o estimate_capacity estimate_capacity.o seqreader.o mmscanner.o omp_hack.o utilities.o g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o lookup_accession_numbers lookup_accession_numbers.o mmap_file.o omp_hack.o utilities.o g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o build_db build_db.o mmap_file.o compact_hash.o taxonomy.o seqreader.o mmscanner.o omp_hack.o utilities.o g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o dump_table dump_table.o mmap_file.o compact_hash.o omp_hack.o taxonomy.o reports.o hyperloglogplus.o g++ -g -O2 -fdebug-prefix-map=/build/kraken2-2.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o classify classify.o reports.o hyperloglogplus.o mmap_file.o compact_hash.o taxonomy.o seqreader.o mmscanner.o omp_hack.o aa_translate.o utilities.o make[1]: Leaving directory '/build/kraken2-2.1.1/src' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_installdirs -O--sourcedirectory=src debian/rules override_dh_auto_install make[1]: Entering directory '/build/kraken2-2.1.1' dh_auto_install -- KRAKEN2_DIR=/build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2 cd src && make -j15 install DESTDIR=/build/kraken2-2.1.1/debian/kraken2 AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" KRAKEN2_DIR=/build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2 make[2]: Entering directory '/build/kraken2-2.1.1/src' cp estimate_capacity build_db classify dump_table lookup_accession_numbers /build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2/ make[2]: Leaving directory '/build/kraken2-2.1.1/src' ./install_kraken2.sh /build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2 make[2]: Entering directory '/build/kraken2-2.1.1/src' cp estimate_capacity build_db classify dump_table lookup_accession_numbers /build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2/ make[2]: Leaving directory '/build/kraken2-2.1.1/src' Kraken 2 installation complete. To make things easier for you, you may want to copy/symlink the following files into a directory in your PATH: /build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2/kraken2 /build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2/kraken2-build /build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2/kraken2-inspect make[1]: Leaving directory '/build/kraken2-2.1.1' debian/rules override_dh_install make[1]: Entering directory '/build/kraken2-2.1.1' dh_install for pl in `grep -Rl '#![[:space:]]*/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#![[:space:]]*/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done make[1]: Leaving directory '/build/kraken2-2.1.1' dh_installdocs -O--sourcedirectory=src dh_installchangelogs -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src debian/rules override_dh_link make[1]: Entering directory '/build/kraken2-2.1.1' dh_link for file in /build/kraken2-2.1.1/debian/kraken2/usr/lib/kraken2/kraken* ; do \ if ! echo ${file} | grep -q '\.pm$' ; then \ ln -s ../lib/kraken2/`basename ${file}` /build/kraken2-2.1.1/debian/kraken2/usr/bin/`basename ${file}` ; \ fi \ done make[1]: Leaving directory '/build/kraken2-2.1.1' dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src dh_strip -a -O--sourcedirectory=src dh_makeshlibs -a -O--sourcedirectory=src dh_shlibdeps -a -O--sourcedirectory=src dh_installdeb -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dpkg-gencontrol: warning: package kraken2: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package kraken2: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'kraken2' in '../kraken2_2.1.1-1_amd64.deb'. dpkg-deb: building package 'kraken2-dbgsym' in '../kraken2-dbgsym_2.1.1-1_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../kraken2_2.1.1-1_amd64.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/1152719 and its subdirectories I: Current time: Sun Jan 23 03:11:15 -12 2022 I: pbuilder-time-stamp: 1642950675 Sun Jan 23 15:11:15 UTC 2022 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Sun Jan 23 15:11:15 UTC 2022 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Sun Jan 23 15:11:58 UTC 2022 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Sun Jan 23 15:11:58 UTC 2022 I: kraken2_2.1.1-1_amd64.changes: Format: 1.8 Date: Thu, 12 Nov 2020 23:26:29 +0530 Source: kraken2 Binary: kraken2 kraken2-dbgsym Architecture: amd64 Version: 2.1.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: kraken2 - taxonomic classification system using exact k-mer matches Changes: kraken2 (2.1.1-1) unstable; urgency=medium . * Team upload. * New upstream version Checksums-Sha1: c15ddbc0ad48be1f10c4923f2706a8e415b9a9ee 1926356 kraken2-dbgsym_2.1.1-1_amd64.deb d34e5ed42e060ee47a861ea21ac774db7b7d81b3 5007 kraken2_2.1.1-1_amd64.buildinfo fbef9b9c0c374170873caf91df82dc33ef9553b3 826552 kraken2_2.1.1-1_amd64.deb Checksums-Sha256: d662b0e1aabc5e34b0dd183b11697f03309db4ddbfcd988daa83fb104059808d 1926356 kraken2-dbgsym_2.1.1-1_amd64.deb 890151a15bb3abb5a4e85103856c8977f118babf2db840f923229ff4a020a5af 5007 kraken2_2.1.1-1_amd64.buildinfo 345b8df8109ba2b3cb98609333e5ae0617c86a4b70ebd3cbe452b9f9c5276e8a 826552 kraken2_2.1.1-1_amd64.deb Files: 08b96fa391c5d8e05f91acc3bb1a811c 1926356 debug optional kraken2-dbgsym_2.1.1-1_amd64.deb 71d3471518130b56796cf814a186a911 5007 science optional kraken2_2.1.1-1_amd64.buildinfo 6354ce27895d424ef3e7f6c8ba8aeebc 826552 science optional kraken2_2.1.1-1_amd64.deb Sun Jan 23 15:11:59 UTC 2022 I: will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.IAqd3a3Qdk/kraken2_2.1.1-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.IAqd3a3Qdk/kraken2_2.1.1-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.IAqd3a3Qdk/kraken2_2.1.1-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.IAqd3a3Qdk/b1/kraken2_2.1.1-1_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.IAqd3a3Qdk/b2/kraken2_2.1.1-1_amd64.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: 0.384s) 0.384s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.062s) 0.061s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sun Jan 23 15:12:01 UTC 2022 I: found no differences in the changes files, and a .buildinfo file also exists. Sun Jan 23 15:12:01 UTC 2022 I: kraken2 from bullseye built successfully and reproducibly on amd64. Sun Jan 23 15:12:02 UTC 2022 I: Submitting .buildinfo files to external archives: Sun Jan 23 15:12:02 UTC 2022 I: Submitting 8.0K b1/kraken2_2.1.1-1_amd64.buildinfo.asc Sun Jan 23 15:12:03 UTC 2022 I: Submitting 8.0K b2/kraken2_2.1.1-1_amd64.buildinfo.asc Sun Jan 23 15:12:04 UTC 2022 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Jan 23 15:12:04 UTC 2022 I: Done submitting .buildinfo files. Sun Jan 23 15:12:04 UTC 2022 I: Removing signed kraken2_2.1.1-1_amd64.buildinfo.asc files: removed './b1/kraken2_2.1.1-1_amd64.buildinfo.asc' removed './b2/kraken2_2.1.1-1_amd64.buildinfo.asc'