Diff of the two buildlogs: -- --- b1/build.log 2021-07-25 10:43:46.594672584 +0000 +++ b2/build.log 2021-07-25 10:10:41.330526935 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Aug 27 04:33:45 -12 2022 -I: pbuilder-time-stamp: 1661618025 +I: Current time: Sun Jul 25 23:41:37 +14 2021 +I: pbuilder-time-stamp: 1627206097 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -16,8 +16,8 @@ I: copying [./python-biopython_1.78+dfsg-4.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.3iQah7cT/trustedkeys.kbx': General error -gpgv: Signature made Sun Dec 6 03:05:43 2020 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.PH71CsLs/trustedkeys.kbx': General error +gpgv: Signature made Mon Dec 7 05:05:43 2020 +14 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./python-biopython_1.78+dfsg-4.dsc @@ -36,135 +36,169 @@ dpkg-source: info: applying mkdssp4.path I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/23601/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/25984/tmp/hooks/D01_modify_environment starting +debug: Running on codethink12-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/25984/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/25984/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='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.1.4(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' - DISTRIBUTION='' - HOME='/var/lib/jenkins' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/var/lib/jenkins + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - 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='23601' - PS1='# ' - PS2='> ' + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=25984 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.I42WtZ89db/pbuilderrc_CVte --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.I42WtZ89db/b1 --logfile b1/build.log python-biopython_1.78+dfsg-4.dsc' - SUDO_GID='117' - SUDO_UID='110' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - USERNAME='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.16:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.I42WtZ89db/pbuilderrc_gakj --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.I42WtZ89db/b2 --logfile b2/build.log --extrapackages usrmerge python-biopython_1.78+dfsg-4.dsc' + SUDO_GID=117 + SUDO_UID=110 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + USERNAME=root + _='I: set' + http_proxy=http://192.168.101.16:3128 I: uname -a - Linux codethink13-arm64 4.15.0-151-generic #157-Ubuntu SMP Fri Jul 9 21:03:48 UTC 2021 aarch64 GNU/Linux + Linux i-capture-the-hostname 4.15.0-151-generic #157-Ubuntu SMP Fri Jul 9 21:03:48 UTC 2021 aarch64 GNU/Linux I: ls -l /bin total 5252 - -rwxr-xr-x 1 root root 1282512 Jun 21 2021 bash - -rwxr-xr-x 3 root root 34808 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 34808 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 34808 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 14264 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 39832 Sep 22 2020 cat - -rwxr-xr-x 1 root root 64512 Sep 22 2020 chgrp - -rwxr-xr-x 1 root root 60368 Sep 22 2020 chmod - -rwxr-xr-x 1 root root 64528 Sep 22 2020 chown - -rwxr-xr-x 1 root root 138896 Sep 22 2020 cp - -rwxr-xr-x 1 root root 129544 Dec 10 2020 dash - -rwxr-xr-x 1 root root 101384 Sep 22 2020 date - -rwxr-xr-x 1 root root 80984 Sep 22 2020 dd - -rwxr-xr-x 1 root root 89824 Sep 22 2020 df - -rwxr-xr-x 1 root root 143088 Sep 22 2020 dir - -rwxr-xr-x 1 root root 76152 Feb 7 2021 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 35632 Sep 22 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 31512 Sep 22 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 64856 Feb 7 2021 findmnt - -rwsr-xr-x 1 root root 34824 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 178400 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 93744 Mar 2 2021 gzip - -rwxr-xr-x 1 root root 18440 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 68720 Sep 22 2020 ln - -rwxr-xr-x 1 root root 52720 Feb 7 2020 login - -rwxr-xr-x 1 root root 143088 Sep 22 2020 ls - -rwxr-xr-x 1 root root 161960 Feb 7 2021 lsblk - -rwxr-xr-x 1 root root 85200 Sep 22 2020 mkdir - -rwxr-xr-x 1 root root 68744 Sep 22 2020 mknod - -rwxr-xr-x 1 root root 43976 Sep 22 2020 mktemp - -rwxr-xr-x 1 root root 51368 Feb 7 2021 more - -rwsr-xr-x 1 root root 51360 Feb 7 2021 mount - -rwxr-xr-x 1 root root 14496 Feb 7 2021 mountpoint - -rwxr-xr-x 1 root root 134808 Sep 22 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 35720 Sep 22 2020 pwd - lrwxrwxrwx 1 root root 4 Jun 21 2021 rbash -> bash - -rwxr-xr-x 1 root root 43872 Sep 22 2020 readlink - -rwxr-xr-x 1 root root 68592 Sep 22 2020 rm - -rwxr-xr-x 1 root root 43880 Sep 22 2020 rmdir - -rwxr-xr-x 1 root root 19208 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Aug 27 03:48 sh -> dash - -rwxr-xr-x 1 root root 35656 Sep 22 2020 sleep - -rwxr-xr-x 1 root root 72640 Sep 22 2020 stty - -rwsr-xr-x 1 root root 67776 Feb 7 2021 su - -rwxr-xr-x 1 root root 35672 Sep 22 2020 sync - -rwxr-xr-x 1 root root 535768 Feb 16 2021 tar - -rwxr-xr-x 1 root root 10568 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 89120 Sep 22 2020 touch - -rwxr-xr-x 1 root root 31512 Sep 22 2020 true - -rwxr-xr-x 1 root root 14264 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 30880 Feb 7 2021 umount - -rwxr-xr-x 1 root root 35640 Sep 22 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress - -rwxr-xr-x 1 root root 143088 Sep 22 2020 vdir - -rwxr-xr-x 1 root root 59584 Feb 7 2021 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/23601/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1282512 Jun 22 16:26 bash + -rwxr-xr-x 3 root root 34808 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 34808 Jul 21 2020 bzcat + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep + -rwxr-xr-x 3 root root 34808 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 14264 Jul 21 2020 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore + -rwxr-xr-x 1 root root 39832 Sep 23 2020 cat + -rwxr-xr-x 1 root root 64512 Sep 23 2020 chgrp + -rwxr-xr-x 1 root root 60368 Sep 23 2020 chmod + -rwxr-xr-x 1 root root 64528 Sep 23 2020 chown + -rwxr-xr-x 1 root root 138896 Sep 23 2020 cp + -rwxr-xr-x 1 root root 129544 Dec 11 2020 dash + -rwxr-xr-x 1 root root 101384 Sep 23 2020 date + -rwxr-xr-x 1 root root 80984 Sep 23 2020 dd + -rwxr-xr-x 1 root root 89824 Sep 23 2020 df + -rwxr-xr-x 1 root root 143088 Sep 23 2020 dir + -rwxr-xr-x 1 root root 76152 Feb 8 04:38 dmesg + lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname + -rwxr-xr-x 1 root root 35632 Sep 23 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 31512 Sep 23 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 64856 Feb 8 04:38 findmnt + -rwsr-xr-x 1 root root 34824 Feb 27 06:12 fusermount + -rwxr-xr-x 1 root root 178400 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 13:30 gzexe + -rwxr-xr-x 1 root root 93744 Mar 3 13:30 gzip + -rwxr-xr-x 1 root root 18440 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 68720 Sep 23 2020 ln + -rwxr-xr-x 1 root root 52720 Feb 8 2020 login + -rwxr-xr-x 1 root root 143088 Sep 23 2020 ls + -rwxr-xr-x 1 root root 161960 Feb 8 04:38 lsblk + -rwxr-xr-x 1 root root 85200 Sep 23 2020 mkdir + -rwxr-xr-x 1 root root 68744 Sep 23 2020 mknod + -rwxr-xr-x 1 root root 43976 Sep 23 2020 mktemp + -rwxr-xr-x 1 root root 51368 Feb 8 04:38 more + -rwsr-xr-x 1 root root 51360 Feb 8 04:38 mount + -rwxr-xr-x 1 root root 14496 Feb 8 04:38 mountpoint + -rwxr-xr-x 1 root root 134808 Sep 23 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 35720 Sep 23 2020 pwd + lrwxrwxrwx 1 root root 4 Jun 22 16:26 rbash -> bash + -rwxr-xr-x 1 root root 43872 Sep 23 2020 readlink + -rwxr-xr-x 1 root root 68592 Sep 23 2020 rm + -rwxr-xr-x 1 root root 43880 Sep 23 2020 rmdir + -rwxr-xr-x 1 root root 19208 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 114016 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Jul 25 23:41 sh -> bash + lrwxrwxrwx 1 root root 4 Jul 25 23:25 sh.distrib -> dash + -rwxr-xr-x 1 root root 35656 Sep 23 2020 sleep + -rwxr-xr-x 1 root root 72640 Sep 23 2020 stty + -rwsr-xr-x 1 root root 67776 Feb 8 04:38 su + -rwxr-xr-x 1 root root 35672 Sep 23 2020 sync + -rwxr-xr-x 1 root root 535768 Feb 17 23:55 tar + -rwxr-xr-x 1 root root 10568 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 89120 Sep 23 2020 touch + -rwxr-xr-x 1 root root 31512 Sep 23 2020 true + -rwxr-xr-x 1 root root 14264 Feb 27 06:12 ulockmgr_server + -rwsr-xr-x 1 root root 30880 Feb 8 04:38 umount + -rwxr-xr-x 1 root root 35640 Sep 23 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress + -rwxr-xr-x 1 root root 143088 Sep 23 2020 vdir + -rwxr-xr-x 1 root root 59584 Feb 8 04:38 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless + -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew +I: user script /srv/workspace/pbuilder/25984/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -494,7 +528,7 @@ Get: 218 http://deb.debian.org/debian bullseye/main arm64 texlive-latex-extra all 2020.20210202-3 [13.7 MB] Get: 219 http://deb.debian.org/debian bullseye/main arm64 wise-data all 2.4.1-23 [78.2 kB] Get: 220 http://deb.debian.org/debian bullseye/main arm64 wise arm64 2.4.1-23 [969 kB] -Fetched 255 MB in 4s (58.3 MB/s) +Fetched 255 MB in 5s (56.4 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 ... 19646 files and directories currently installed.) @@ -1415,8 +1449,45 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +The following additional packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl +The following NEW packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge +0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. +Need to get 59.5 kB of archives. +After this operation, 157 kB of additional disk space will be used. +Get:1 http://deb.debian.org/debian bullseye/main arm64 libnumber-compare-perl all 0.03-1.1 [6956 B] +Get:2 http://deb.debian.org/debian bullseye/main arm64 libtext-glob-perl all 0.11-1 [8888 B] +Get:3 http://deb.debian.org/debian bullseye/main arm64 libfile-find-rule-perl all 0.34-1 [30.6 kB] +Get:4 http://deb.debian.org/debian bullseye/main arm64 usrmerge all 25 [13.0 kB] +debconf: delaying package configuration, since apt-utils is not installed +Fetched 59.5 kB in 0s (1573 kB/s) +Selecting previously unselected package libnumber-compare-perl. +(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 ... 52396 files and directories currently installed.) +Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... +Unpacking libnumber-compare-perl (0.03-1.1) ... +Selecting previously unselected package libtext-glob-perl. +Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... +Unpacking libtext-glob-perl (0.11-1) ... +Selecting previously unselected package libfile-find-rule-perl. +Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... +Unpacking libfile-find-rule-perl (0.34-1) ... +Selecting previously unselected package usrmerge. +Preparing to unpack .../archives/usrmerge_25_all.deb ... +Unpacking usrmerge (25) ... +Setting up libtext-glob-perl (0.11-1) ... +Setting up libnumber-compare-perl (0.03-1.1) ... +Setting up libfile-find-rule-perl (0.34-1) ... +Setting up usrmerge (25) ... +The system has been successfully converted. +Processing triggers for man-db (2.9.4-2) ... +Not building database; man-db/auto-update is not 'true'. I: Building the package -I: Running cd /build/python-biopython-1.78+dfsg/ && 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 > ../python-biopython_1.78+dfsg-4_source.changes +hostname: Temporary failure in name resolution +I: Running cd /build/python-biopython-1.78+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../python-biopython_1.78+dfsg-4_source.changes dpkg-buildpackage: info: source package python-biopython dpkg-buildpackage: info: source version 1.78+dfsg-4 dpkg-buildpackage: info: source distribution unstable @@ -13283,13 +13354,13 @@ BioSQL.DBUtils docstring test ... ok BioSQL.Loader docstring test ... ok ---------------------------------------------------------------------- -Ran 516 tests in 1133.181 seconds +Ran 516 tests in 965.006 seconds Skipping any tests requiring internet access Python version: 3.9.2 (default, Feb 28 2021, 17:03:44) [GCC 10.2.1 20210110] Operating system: posix linux - rm -fr -- /tmp/dh-xdg-rundir-31krCm1i + rm -fr -- /tmp/dh-xdg-rundir-dQ0V0Q6B mv Tests_avoid/* Tests rmdir Tests_avoid make[1]: Leaving directory '/build/python-biopython-1.78+dfsg' @@ -13329,8 +13400,8 @@ creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Tests/out.bam -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests -creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests/tmpdirprankmsacv0njq -creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests/tmpdirprankmsaTNWFI3 +creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests/tmpdirprankmsaBRTq4T +creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests/tmpdirprankmsaaf6rNN copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Tests/output.best.nex -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Tests/output.best.fas -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests/__pycache__ @@ -15100,6 +15171,9 @@ copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Tests/.coveragerc -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Tests creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc creating /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial +copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_seq_objects.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial +copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_quick_start.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial +copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_introduction.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_appendix.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_contributing.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_advanced.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial @@ -15107,23 +15181,20 @@ copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_cookbook.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_phenotype.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_kegg.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial +copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_seq_annot.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial +copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_seqio.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_graphics.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_learning.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_cluster.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_motifs.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial -copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_popgen.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_phylo.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial +copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_popgen.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_pdb.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_uniprot.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial +copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_entrez.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_searchio.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial -copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_seq_annot.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial -copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_seqio.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_blast.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial -copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_entrez.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial -copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_seq_objects.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_align.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial -copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_quick_start.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial -copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_introduction.aux -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_uniprot.tex -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_testing.tex -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial copying /build/python-biopython-1.78+dfsg/.pybuild/cpython3_3.9/build/Doc/Tutorial/chapter_seqio.tex -> /build/python-biopython-1.78+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/Doc/Tutorial @@ -16871,8 +16942,8 @@ install -p -m0644 debian/copyright debian/python3-biopython/usr/share/doc/python3-biopython/copyright dh_installchangelogs -O--buildsystem=pybuild install -p -m0644 debian/changelog debian/python3-biopython/usr/share/doc/python3-biopython/changelog.Debian - install -p -m0644 debian/changelog debian/python-biopython-doc/usr/share/doc/python-biopython-doc/changelog.Debian install -p -m0644 debian/changelog debian/python3-biopython-sql/usr/share/doc/python3-biopython-sql/changelog.Debian + install -p -m0644 debian/changelog debian/python-biopython-doc/usr/share/doc/python-biopython-doc/changelog.Debian dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:161: version: 4.20201102+nmu1 D: dh_python3 dh_python3:162: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] @@ -16886,7 +16957,7 @@ D: dh_python3 fs:260: package python3-biopython details = {'requires.txt': {'debian/python3-biopython/usr/lib/python3/dist-packages/biopython-1.78.egg-info/requires.txt'}, 'egg-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.9')}, 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package python3-biopython D: dh_python3 pydist:142: trying to find dependency for numpy (python=None) -D: dh_python3 depends:275: D={'python3 (>= 3.9~)', 'python3:any', 'python3 (<< 3.10)', 'python3-numpy'}; R=[]; S=[]; E=[], B=[]; RT=[] +D: dh_python3 depends:275: D={'python3:any', 'python3 (>= 3.9~)', 'python3-numpy', 'python3 (<< 3.10)'}; R=[]; S=[]; E=[], B=[]; RT=[] D: dh_python3 dh_python3:183: processing package python3-biopython-sql... D: dh_python3 fs:49: moving files from debian/python3-biopython-sql/usr/lib/python3.9/dist-packages to debian/python3-biopython-sql/usr/lib/python3/dist-packages/ D: dh_python3 fs:260: package python3-biopython-sql details = {'requires.txt': set(), 'egg-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} @@ -16904,11 +16975,11 @@ ln -s ../../../../../../share/xml/schema/w3c/mathml/dtd/mathml2.dtd debian/python3-biopython/usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd dh_strip_nondeterminism -O--buildsystem=pybuild Using 1607207560 as canonical time - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/Roche/E3MFGYR02_random_10_reads.sff.gz using File::StripNondeterminism::handlers::gzip - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/KEGG/map03070.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/KEGG/map01100.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/Fasta/flowers.pro.gz using File::StripNondeterminism::handlers::gzip - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_simple.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_cl2a.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_cl.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/tRNA_chrom.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/smcra.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/simple_chrom.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/plasmid_linear_nice.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/plasmid_linear.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/plasmid_circular_nice.png using File::StripNondeterminism::handlers::png @@ -16919,37 +16990,37 @@ Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-dot.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-color.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-color-draw.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_cl2a.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_cl.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/tRNA_chrom.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/smcra.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/simple_chrom.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/Roche/E3MFGYR02_random_10_reads.sff.gz using File::StripNondeterminism::handlers::gzip + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/KEGG/map03070.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/KEGG/map01100.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Tests/Fasta/flowers.pro.gz using File::StripNondeterminism::handlers::gzip + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/three_track_simple.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-apaf.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/phylo-apaf-zoom.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/hist_plot.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/gc_plot.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/dot_plot_scatter.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/SRR001666.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/PSIBlastRecord.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigils.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigil_labels.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigil_arrow_shafts.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/dot_plot.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_xs.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_s.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_m.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/biopython_logo_l.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/SRR001666.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/PSIBlastRecord.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigils.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigil_labels.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigil_arrow_shafts.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/GD_sigil_arrow_heads.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/images/BlastRecord.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biopython-doc/usr/share/doc/python-biopython-doc/Doc/examples/ls_orchid.gbk.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--buildsystem=pybuild cd debian/python3-biopython - cd debian/python3-biopython-sql cd debian/python-biopython-doc + cd debian/python3-biopython-sql chmod a-x usr/share/doc/python3-biopython-sql/changelog.Debian + gzip -9nf usr/share/doc/python3-biopython-sql/changelog.Debian chmod a-x usr/share/doc/python3-biopython/CONTRIB.rst usr/share/doc/python3-biopython/CONTRIBUTING.rst usr/share/doc/python3-biopython/DEPRECATED.rst usr/share/doc/python3-biopython/NEWS.rst usr/share/doc/python3-biopython/changelog.Debian gzip -9nf usr/share/doc/python3-biopython/CONTRIB.rst usr/share/doc/python3-biopython/CONTRIBUTING.rst usr/share/doc/python3-biopython/DEPRECATED.rst usr/share/doc/python3-biopython/NEWS.rst usr/share/doc/python3-biopython/changelog.Debian - gzip -9nf usr/share/doc/python3-biopython-sql/changelog.Debian cd '/build/python-biopython-1.78+dfsg' cd '/build/python-biopython-1.78+dfsg' chmod a-x usr/share/doc/python-biopython-doc/Doc/Tutorial.pdf usr/share/doc/python-biopython-doc/Doc/Tutorial.tex usr/share/doc/python-biopython-doc/Doc/Tutorial.txt usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_advanced.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_align.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_appendix.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_blast.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_cluster.tex usr/share/doc/python-biopython-doc/Doc/Tutorial/chapter_contributing.tex 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usr/share/doc/python-biopython-doc/Tests/GenBank/NC_000932.gb.bgz usr/share/doc/python-biopython-doc/Tests/GenBank/NC_005816.ffn usr/share/doc/python-biopython-doc/Tests/GenBank/NC_005816.fna usr/share/doc/python-biopython-doc/Tests/GenBank/NC_005816.gb usr/share/doc/python-biopython-doc/Tests/GenBank/NP_416719.gbwithparts usr/share/doc/python-biopython-doc/Tests/GenBank/arab1.gb usr/share/doc/python-biopython-doc/Tests/GenBank/bad_loc_wrap.gb usr/share/doc/python-biopython-doc/Tests/GenBank/bad_origin_wrap_fuzzy.gb usr/share/doc/python-biopython-doc/Tests/GenBank/cor6_6.gb usr/share/doc/python-biopython-doc/Tests/GenBank/cor6_6.gb.bgz usr/share/doc/python-biopython-doc/Tests/GenBank/empty_accession.gbk usr/share/doc/python-biopython-doc/Tests/GenBank/empty_feature_qualifier.gb usr/share/doc/python-biopython-doc/Tests/GenBank/empty_version.gbk usr/share/doc/python-biopython-doc/Tests/GenBank/extra_keywords.gb usr/share/doc/python-biopython-doc/Tests/GenBank/gbvrl1_start.seq usr/share/doc/python-biopython-doc/Tests/GenBank/invalid_locus_line_spacing.gb usr/share/doc/python-biopython-doc/Tests/GenBank/invalid_misc_feature.gb usr/share/doc/python-biopython-doc/Tests/GenBank/invalid_product.gb usr/share/doc/python-biopython-doc/Tests/GenBank/invalid_structured_comment.gb usr/share/doc/python-biopython-doc/Tests/GenBank/iro.gb usr/share/doc/python-biopython-doc/Tests/GenBank/negative_location.gb usr/share/doc/python-biopython-doc/Tests/GenBank/no_end_marker.gb usr/share/doc/python-biopython-doc/Tests/GenBank/noref.gb usr/share/doc/python-biopython-doc/Tests/GenBank/one_of.gb usr/share/doc/python-biopython-doc/Tests/GenBank/pBAD30.gb usr/share/doc/python-biopython-doc/Tests/GenBank/protein_refseq2.gb usr/share/doc/python-biopython-doc/Tests/GenBank/wrong_sequence_indent.gb usr/share/doc/python-biopython-doc/Tests/Geo/soft_ex_affy.txt usr/share/doc/python-biopython-doc/Tests/Geo/soft_ex_affy_chp.txt usr/share/doc/python-biopython-doc/Tests/Geo/soft_ex_dual.txt usr/share/doc/python-biopython-doc/Tests/Geo/soft_ex_family.txt usr/share/doc/python-biopython-doc/Tests/Geo/soft_ex_platform.txt usr/share/doc/python-biopython-doc/Tests/HHsuite/2uvo_hhblits.hhr usr/share/doc/python-biopython-doc/Tests/HHsuite/2uvo_hhsearch.hhr usr/share/doc/python-biopython-doc/Tests/HHsuite/4p79_hhsearch_server_NOssm.hhr usr/share/doc/python-biopython-doc/Tests/HHsuite/4y9h_hhsearch_server_NOssm.hhr usr/share/doc/python-biopython-doc/Tests/HHsuite/allx.hhr usr/share/doc/python-biopython-doc/Tests/HHsuite/hhpred_9590198.hhr usr/share/doc/python-biopython-doc/Tests/HHsuite/hhsearch_q9bsu1_uniclust_w_ss_pfamA_30.hhr usr/share/doc/python-biopython-doc/Tests/Hmmer/domtab_30_hmmsearch_001.out usr/share/doc/python-biopython-doc/Tests/Hmmer/domtab_31b1_hmmscan_001.out usr/share/doc/python-biopython-doc/Tests/Hmmer/text_20_hmmsearch_001.out usr/share/doc/python-biopython-doc/Tests/Hmmer/text_22_hmmsearch_001.out @@ -16969,12 +17040,12 @@ find debian/python3-biopython-sql/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-biopython-sql/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-biopython/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython-sql/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/python3-biopython/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-biopython-sql -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/python3-biopython/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython-sql/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w - find debian/python3-biopython -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/python3-biopython/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 + find debian/python3-biopython/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python-biopython-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/python-biopython-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/python3-biopython -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biopython/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/python-biopython-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python-biopython-doc/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 @@ -17050,29 +17121,29 @@ cat debian/python3-biopython-sql.prerm.debhelper >> debian/python3-biopython-sql/DEBIAN/prerm chmod 0755 -- debian/python3-biopython-sql/DEBIAN/prerm dh_gencontrol -O--buildsystem=pybuild - echo misc:Depends= >> debian/python3-biopython-sql.substvars - echo misc:Pre-Depends= >> debian/python3-biopython-sql.substvars - dpkg-gencontrol -ppython3-biopython-sql -ldebian/changelog -Tdebian/python3-biopython-sql.substvars -Pdebian/python3-biopython-sql echo misc:Depends= >> debian/python-biopython-doc.substvars echo misc:Pre-Depends= >> debian/python-biopython-doc.substvars dpkg-gencontrol -ppython-biopython-doc -ldebian/changelog -Tdebian/python-biopython-doc.substvars -Pdebian/python-biopython-doc + echo misc:Depends= >> debian/python3-biopython-sql.substvars + echo misc:Pre-Depends= >> debian/python3-biopython-sql.substvars + dpkg-gencontrol -ppython3-biopython-sql -ldebian/changelog -Tdebian/python3-biopython-sql.substvars -Pdebian/python3-biopython-sql echo misc:Depends= >> debian/python3-biopython.substvars echo misc:Pre-Depends= >> debian/python3-biopython.substvars install -d debian/.debhelper/python3-biopython/dbgsym-root/DEBIAN dpkg-gencontrol -ppython3-biopython -ldebian/changelog -Tdebian/python3-biopython.substvars -Pdebian/.debhelper/python3-biopython/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -UBuilt-Using -DAuto-Built-Package=debug-symbols -UProtected -DPackage=python3-biopython-dbgsym "-DDepends=python3-biopython (= \${binary:Version})" "-DDescription=debug symbols for python3-biopython" "-DBuild-Ids=2ae65e682205ededae4f902a9bfd1e356f8158f1 2dca40fa951238b0b08e5d78cf20c65f7cb71ee0 33a9ce560253b8de6e6282de55a90e336d840adf 567f258e13fa4ebffcbb0ec9d3a5f82da51f90f5 bda54fd6f0a8c192639975af3457e924c43231ce df6039f89c7d507597f63a7bd3312eb24218081d f097f2fa8f333bf1a90a3923173eda72d7cdaeb1" -DSection=debug -UMulti-Arch -UReplaces -UBreaks +dpkg-gencontrol: warning: Provides field of package python3-biopython-sql: substitution variable ${python3:Provides} used, but is not defined + chmod 0644 -- debian/python3-biopython-sql/DEBIAN/control + chmod 0644 -- debian/python-biopython-doc/DEBIAN/control dpkg-gencontrol: warning: package python3-biopython: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-biopython: substitution variable ${python3:Versions} unused, but is defined -dpkg-gencontrol: warning: Provides field of package python3-biopython-sql: substitution variable ${python3:Provides} used, but is not defined chmod 0644 -- debian/.debhelper/python3-biopython/dbgsym-root/DEBIAN/control dpkg-gencontrol -ppython3-biopython -ldebian/changelog -Tdebian/python3-biopython.substvars -Pdebian/python3-biopython - chmod 0644 -- debian/python3-biopython-sql/DEBIAN/control - chmod 0644 -- debian/python-biopython-doc/DEBIAN/control dpkg-gencontrol: warning: package python3-biopython: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-biopython: substitution variable ${python3:Versions} unused, but is defined chmod 0644 -- debian/python3-biopython/DEBIAN/control dh_md5sums -O--buildsystem=pybuild - cd debian/python3-biopython >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python3-biopython-sql >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + cd debian/python3-biopython >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python-biopython-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/python3-biopython-sql/DEBIAN/md5sums chmod 0644 -- debian/python3-biopython/DEBIAN/md5sums @@ -17081,13 +17152,13 @@ chmod 0644 -- debian/python-biopython-doc/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-biopython .. - dpkg-deb --root-owner-group --build debian/python3-biopython-sql .. + dpkg-deb --root-owner-group --build debian/.debhelper/python3-biopython/dbgsym-root .. dpkg-deb --root-owner-group --build debian/python-biopython-doc .. + dpkg-deb --root-owner-group --build debian/python3-biopython-sql .. dpkg-deb: building package 'python3-biopython' in '../python3-biopython_1.78+dfsg-4_arm64.deb'. +dpkg-deb: building package 'python3-biopython-dbgsym' in '../python3-biopython-dbgsym_1.78+dfsg-4_arm64.deb'. dpkg-deb: building package 'python-biopython-doc' in '../python-biopython-doc_1.78+dfsg-4_all.deb'. dpkg-deb: building package 'python3-biopython-sql' in '../python3-biopython-sql_1.78+dfsg-4_all.deb'. - dpkg-deb --root-owner-group --build debian/.debhelper/python3-biopython/dbgsym-root .. -dpkg-deb: building package 'python3-biopython-dbgsym' in '../python3-biopython-dbgsym_1.78+dfsg-4_arm64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../python-biopython_1.78+dfsg-4_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -17095,12 +17166,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/25984/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/25984/tmp/hooks/B01_cleanup finished 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/23601 and its subdirectories -I: Current time: Sat Aug 27 05:06:45 -12 2022 -I: pbuilder-time-stamp: 1661620005 +I: removing directory /srv/workspace/pbuilder/25984 and its subdirectories +I: Current time: Mon Jul 26 00:10:40 +14 2021 +I: pbuilder-time-stamp: 1627207840