Diff of the two buildlogs: -- --- b1/build.log 2021-07-20 20:03:36.502296030 +0000 +++ b2/build.log 2021-07-20 20:15:19.084025284 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Jul 20 07:54:19 -12 2021 -I: pbuilder-time-stamp: 1626810859 +I: Current time: Wed Jul 21 10:04:46 +14 2021 +I: pbuilder-time-stamp: 1626811486 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 [./ragout_2.3-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.0OgW6r1j/trustedkeys.kbx': General error -gpgv: Signature made Sat Mar 28 09:50:45 2020 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.2EdEHKOs/trustedkeys.kbx': General error +gpgv: Signature made Sun Mar 29 11:50:45 2020 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -29,135 +29,169 @@ dpkg-source: info: applying connected_component_subgraphs.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/5980/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/28197/tmp/hooks/D01_modify_environment starting +debug: Running on virt64a. +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/28197/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/28197/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=3' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='armhf' + 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]="arm-unknown-linux-gnueabihf") + 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=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=4' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='7731365ad8364b828d6d9f462b3125f2' - 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='5980' - PS1='# ' - PS2='> ' + INVOCATION_ID=fbd3ce70a077443389e4f0ba2785009e + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + 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=28197 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.wOsO79Wjoy/pbuilderrc_gAIH --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.wOsO79Wjoy/b1 --logfile b1/build.log ragout_2.3-2.dsc' - SUDO_GID='113' - SUDO_UID='107' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:8000/' + 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.wOsO79Wjoy/pbuilderrc_Txs9 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.wOsO79Wjoy/b2 --logfile b2/build.log --extrapackages usrmerge ragout_2.3-2.dsc' + SUDO_GID=114 + SUDO_UID=108 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:8000/ I: uname -a - Linux virt32a 5.10.0-7-armmp-lpae #1 SMP Debian 5.10.40-1 (2021-05-28) armv7l GNU/Linux + Linux i-capture-the-hostname 5.10.0-7-arm64 #1 SMP Debian 5.10.40-1 (2021-05-28) aarch64 GNU/Linux I: ls -l /bin total 3580 - -rwxr-xr-x 1 root root 816764 Jun 21 14:26 bash - -rwxr-xr-x 3 root root 26052 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzcat - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep - -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 9636 Jul 20 2020 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore - -rwxr-xr-x 1 root root 26668 Sep 22 2020 cat - -rwxr-xr-x 1 root root 43104 Sep 22 2020 chgrp - -rwxr-xr-x 1 root root 38984 Sep 22 2020 chmod - -rwxr-xr-x 1 root root 43112 Sep 22 2020 chown - -rwxr-xr-x 1 root root 92616 Sep 22 2020 cp - -rwxr-xr-x 1 root root 75524 Dec 10 2020 dash - -rwxr-xr-x 1 root root 75880 Sep 22 2020 date - -rwxr-xr-x 1 root root 55436 Sep 22 2020 dd - -rwxr-xr-x 1 root root 59912 Sep 22 2020 df - -rwxr-xr-x 1 root root 96764 Sep 22 2020 dir - -rwxr-xr-x 1 root root 55012 Feb 7 02:38 dmesg - lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname - -rwxr-xr-x 1 root root 22508 Sep 22 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 22496 Sep 22 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 47492 Feb 7 02:38 findmnt - -rwsr-xr-x 1 root root 26076 Feb 26 04:12 fusermount - -rwxr-xr-x 1 root root 124508 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe - -rwxr-xr-x 1 root root 64212 Mar 2 11:30 gzip - -rwxr-xr-x 1 root root 13784 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 43180 Sep 22 2020 ln - -rwxr-xr-x 1 root root 35068 Feb 7 2020 login - -rwxr-xr-x 1 root root 96764 Sep 22 2020 ls - -rwxr-xr-x 1 root root 99940 Feb 7 02:38 lsblk - -rwxr-xr-x 1 root root 51408 Sep 22 2020 mkdir - -rwxr-xr-x 1 root root 43184 Sep 22 2020 mknod - -rwxr-xr-x 1 root root 30780 Sep 22 2020 mktemp - -rwxr-xr-x 1 root root 34408 Feb 7 02:38 more - -rwsr-xr-x 1 root root 34400 Feb 7 02:38 mount - -rwxr-xr-x 1 root root 9824 Feb 7 02:38 mountpoint - -rwxr-xr-x 1 root root 88524 Sep 22 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 26652 Sep 22 2020 pwd - lrwxrwxrwx 1 root root 4 Jun 21 14:26 rbash -> bash - -rwxr-xr-x 1 root root 30740 Sep 22 2020 readlink - -rwxr-xr-x 1 root root 43104 Sep 22 2020 rm - -rwxr-xr-x 1 root root 30732 Sep 22 2020 rmdir - -rwxr-xr-x 1 root root 14144 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Jul 17 21:25 sh -> dash - -rwxr-xr-x 1 root root 22532 Sep 22 2020 sleep - -rwxr-xr-x 1 root root 55360 Sep 22 2020 stty - -rwsr-xr-x 1 root root 46704 Feb 7 02:38 su - -rwxr-xr-x 1 root root 22532 Sep 22 2020 sync - -rwxr-xr-x 1 root root 340872 Feb 16 21:55 tar - -rwxr-xr-x 1 root root 9808 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 67696 Sep 22 2020 touch - -rwxr-xr-x 1 root root 22496 Sep 22 2020 true - -rwxr-xr-x 1 root root 9636 Feb 26 04:12 ulockmgr_server - -rwsr-xr-x 1 root root 22108 Feb 7 02:38 umount - -rwxr-xr-x 1 root root 22520 Sep 22 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress - -rwxr-xr-x 1 root root 96764 Sep 22 2020 vdir - -rwxr-xr-x 1 root root 38512 Feb 7 02:38 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless - -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew -I: user script /srv/workspace/pbuilder/5980/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 816764 Jun 22 16:26 bash + -rwxr-xr-x 3 root root 26052 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 26052 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 26052 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 9636 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 26668 Sep 23 2020 cat + -rwxr-xr-x 1 root root 43104 Sep 23 2020 chgrp + -rwxr-xr-x 1 root root 38984 Sep 23 2020 chmod + -rwxr-xr-x 1 root root 43112 Sep 23 2020 chown + -rwxr-xr-x 1 root root 92616 Sep 23 2020 cp + -rwxr-xr-x 1 root root 75524 Dec 11 2020 dash + -rwxr-xr-x 1 root root 75880 Sep 23 2020 date + -rwxr-xr-x 1 root root 55436 Sep 23 2020 dd + -rwxr-xr-x 1 root root 59912 Sep 23 2020 df + -rwxr-xr-x 1 root root 96764 Sep 23 2020 dir + -rwxr-xr-x 1 root root 55012 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 22508 Sep 23 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 22496 Sep 23 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 47492 Feb 8 04:38 findmnt + -rwsr-xr-x 1 root root 26076 Feb 27 06:12 fusermount + -rwxr-xr-x 1 root root 124508 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 64212 Mar 3 13:30 gzip + -rwxr-xr-x 1 root root 13784 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 43180 Sep 23 2020 ln + -rwxr-xr-x 1 root root 35068 Feb 8 2020 login + -rwxr-xr-x 1 root root 96764 Sep 23 2020 ls + -rwxr-xr-x 1 root root 99940 Feb 8 04:38 lsblk + -rwxr-xr-x 1 root root 51408 Sep 23 2020 mkdir + -rwxr-xr-x 1 root root 43184 Sep 23 2020 mknod + -rwxr-xr-x 1 root root 30780 Sep 23 2020 mktemp + -rwxr-xr-x 1 root root 34408 Feb 8 04:38 more + -rwsr-xr-x 1 root root 34400 Feb 8 04:38 mount + -rwxr-xr-x 1 root root 9824 Feb 8 04:38 mountpoint + -rwxr-xr-x 1 root root 88524 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 26652 Sep 23 2020 pwd + lrwxrwxrwx 1 root root 4 Jun 22 16:26 rbash -> bash + -rwxr-xr-x 1 root root 30740 Sep 23 2020 readlink + -rwxr-xr-x 1 root root 43104 Sep 23 2020 rm + -rwxr-xr-x 1 root root 30732 Sep 23 2020 rmdir + -rwxr-xr-x 1 root root 14144 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 76012 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Jul 21 10:05 sh -> bash + lrwxrwxrwx 1 root root 4 Jul 19 23:25 sh.distrib -> dash + -rwxr-xr-x 1 root root 22532 Sep 23 2020 sleep + -rwxr-xr-x 1 root root 55360 Sep 23 2020 stty + -rwsr-xr-x 1 root root 46704 Feb 8 04:38 su + -rwxr-xr-x 1 root root 22532 Sep 23 2020 sync + -rwxr-xr-x 1 root root 340872 Feb 17 23:55 tar + -rwxr-xr-x 1 root root 9808 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 67696 Sep 23 2020 touch + -rwxr-xr-x 1 root root 22496 Sep 23 2020 true + -rwxr-xr-x 1 root root 9636 Feb 27 06:12 ulockmgr_server + -rwsr-xr-x 1 root root 22108 Feb 8 04:38 umount + -rwxr-xr-x 1 root root 22520 Sep 23 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress + -rwxr-xr-x 1 root root 96764 Sep 23 2020 vdir + -rwxr-xr-x 1 root root 38512 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/28197/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -261,7 +295,7 @@ Get: 58 http://deb.debian.org/debian bullseye/main armhf python3-pkg-resources all 52.0.0-4 [190 kB] Get: 59 http://deb.debian.org/debian bullseye/main armhf python3-networkx all 2.5+ds-2 [900 kB] Get: 60 http://deb.debian.org/debian bullseye/main armhf python3-setuptools all 52.0.0-4 [366 kB] -Fetched 30.5 MB in 3s (12.0 MB/s) +Fetched 30.5 MB in 4s (8118 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19398 files and directories currently installed.) @@ -518,8 +552,45 @@ 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 armhf libnumber-compare-perl all 0.03-1.1 [6956 B] +Get:2 http://deb.debian.org/debian bullseye/main armhf libtext-glob-perl all 0.11-1 [8888 B] +Get:3 http://deb.debian.org/debian bullseye/main armhf libfile-find-rule-perl all 0.34-1 [30.6 kB] +Get:4 http://deb.debian.org/debian bullseye/main armhf usrmerge all 25 [13.0 kB] +debconf: delaying package configuration, since apt-utils is not installed +Fetched 59.5 kB in 0s (428 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 ... 23324 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/ragout-2.3/ && 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 > ../ragout_2.3-2_source.changes +hostname: Name or service not known +I: Running cd /build/ragout-2.3/ && 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 > ../ragout_2.3-2_source.changes dpkg-buildpackage: info: source package ragout dpkg-buildpackage: info: source version 2.3-2 dpkg-buildpackage: info: source distribution unstable @@ -529,7 +600,7 @@ debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean -make[1]: Entering directory '/build/ragout-2.3' +make[1]: ingresso nella directory «/build/ragout-2.3» dh_auto_clean || true I: pybuild base:232: python3.9 setup.py clean running clean @@ -539,7 +610,7 @@ rm -f bin/ragout-maf2synteny bin/ragout-overlap rm -rf .pybuild find . -name "*.o" -delete -make[1]: Leaving directory '/build/ragout-2.3' +make[1]: uscita dalla directory «/build/ragout-2.3» dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary @@ -555,86 +626,86 @@ running build_py creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout copying ragout/main.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout -copying ragout/six.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout copying ragout/__version__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout copying ragout/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout +copying ragout/six.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph -copying ragout/assembly_graph/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph copying ragout/assembly_graph/assembly_refine.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph +copying ragout/assembly_graph/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph -copying ragout/breakpoint_graph/chimera_detector.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph -copying ragout/breakpoint_graph/inferer.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph +copying ragout/breakpoint_graph/repeat_resolver.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph copying ragout/breakpoint_graph/permutation.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph -copying ragout/breakpoint_graph/breakpoint_graph.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph copying ragout/breakpoint_graph/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph -copying ragout/breakpoint_graph/repeat_resolver.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph +copying ragout/breakpoint_graph/breakpoint_graph.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph +copying ragout/breakpoint_graph/inferer.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph +copying ragout/breakpoint_graph/chimera_detector.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny -copying ragout/maf2synteny/maf2synteny.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny copying ragout/maf2synteny/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny +copying ragout/maf2synteny/maf2synteny.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap -copying ragout/overlap/overlap.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap copying ragout/overlap/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap +copying ragout/overlap/overlap.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers -copying ragout/parsers/phylogeny_parser.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers copying ragout/parsers/fasta_parser.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers copying ragout/parsers/recipe_parser.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers +copying ragout/parsers/phylogeny_parser.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers copying ragout/parsers/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny copying ragout/phylogeny/phylogeny.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny -copying ragout/phylogeny/inferer.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny copying ragout/phylogeny/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny +copying ragout/phylogeny/inferer.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder -copying ragout/scaffolder/merge_iters.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder -copying ragout/scaffolder/output_generator.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder copying ragout/scaffolder/scaffolder.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder +copying ragout/scaffolder/output_generator.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder copying ragout/scaffolder/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder +copying ragout/scaffolder/merge_iters.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared -copying ragout/shared/utils.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared -copying ragout/shared/debug.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared copying ragout/shared/datatypes.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared -copying ragout/shared/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared +copying ragout/shared/utils.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared copying ragout/shared/config.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared +copying ragout/shared/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared +copying ragout/shared/debug.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend +copying ragout/synteny_backend/cactus.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend +copying ragout/synteny_backend/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend copying ragout/synteny_backend/synteny_backend.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend -copying ragout/synteny_backend/sibelia.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend copying ragout/synteny_backend/hal.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend +copying ragout/synteny_backend/sibelia.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend copying ragout/synteny_backend/maf.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend -copying ragout/synteny_backend/cactus.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend -copying ragout/synteny_backend/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick -copying ragout/newick/parser.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick -copying ragout/newick/tree.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick -copying ragout/newick/lexer.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick copying ragout/newick/tokens.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick +copying ragout/newick/tree.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick copying ragout/newick/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick +copying ragout/newick/lexer.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick +copying ragout/newick/parser.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests copying ragout/tests/test_toy.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests copying ragout/tests/__init__.py -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests creating /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data -copying ragout/tests/data/ecoli.rcp -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data -copying ragout/tests/data/DH1.fasta -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data -copying ragout/tests/data/mg1655_contigs.fasta -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data copying ragout/tests/data/mg1655.coords -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data -make[1]: Entering directory '/build/ragout-2.3' +copying ragout/tests/data/mg1655_contigs.fasta -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data +copying ragout/tests/data/DH1.fasta -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data +copying ragout/tests/data/ecoli.rcp -> /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data +make[1]: ingresso nella directory «/build/ragout-2.3» make -C ragout/overlap/cpp_impl all -make[2]: Entering directory '/build/ragout-2.3/ragout/overlap/cpp_impl' +make[2]: ingresso nella directory «/build/ragout-2.3/ragout/overlap/cpp_impl» g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG build_graph.cpp -o build_graph.o g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG fasta.cpp -o fasta.o g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG main.cpp -o main.o g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG overlap.cpp -o overlap.o g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG suffix_array.cpp -o suffix_array.o g++ -Wl,-z,relro -Wl,-z,now build_graph.o fasta.o main.o overlap.o suffix_array.o -o /build/ragout-2.3/bin/ragout-overlap -make[2]: Leaving directory '/build/ragout-2.3/ragout/overlap/cpp_impl' +make[2]: uscita dalla directory «/build/ragout-2.3/ragout/overlap/cpp_impl» make -C ragout/maf2synteny/cpp_impl all -make[2]: Entering directory '/build/ragout-2.3/ragout/maf2synteny/cpp_impl' +make[2]: ingresso nella directory «/build/ragout-2.3/ragout/maf2synteny/cpp_impl» g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG breakpoint_graph.cpp -o breakpoint_graph.o g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG compress_algorithms.cpp -o compress_algorithms.o g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG maf_tools.cpp -o maf_tools.o g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG main.cpp -o main.o g++ -c -g -O2 -fdebug-prefix-map=/build/ragout-2.3=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++0x -Wall -O2 -DNDEBUG permutation.cpp -o permutation.o g++ -Wl,-z,relro -Wl,-z,now breakpoint_graph.o compress_algorithms.o maf_tools.o main.o permutation.o -o /build/ragout-2.3/bin/ragout-maf2synteny -make[2]: Leaving directory '/build/ragout-2.3/ragout/maf2synteny/cpp_impl' -make[1]: Leaving directory '/build/ragout-2.3' +make[2]: uscita dalla directory «/build/ragout-2.3/ragout/maf2synteny/cpp_impl» +make[1]: uscita dalla directory «/build/ragout-2.3» dh_auto_test -O--buildsystem=pybuild I: pybuild base:232: cd /build/ragout-2.3/.pybuild/cpython3_3.9/build; python3.9 -m unittest discover -v @@ -650,153 +721,153 @@ running install running build running build_py -make[1]: Entering directory '/build/ragout-2.3' +make[1]: ingresso nella directory «/build/ragout-2.3» make -C ragout/overlap/cpp_impl all -make[2]: Entering directory '/build/ragout-2.3/ragout/overlap/cpp_impl' +make[2]: ingresso nella directory «/build/ragout-2.3/ragout/overlap/cpp_impl» g++ -Wl,-z,relro -Wl,-z,now build_graph.o fasta.o main.o overlap.o suffix_array.o -o /build/ragout-2.3/bin/ragout-overlap -make[2]: Leaving directory '/build/ragout-2.3/ragout/overlap/cpp_impl' +make[2]: uscita dalla directory «/build/ragout-2.3/ragout/overlap/cpp_impl» make -C ragout/maf2synteny/cpp_impl all -make[2]: Entering directory '/build/ragout-2.3/ragout/maf2synteny/cpp_impl' +make[2]: ingresso nella directory «/build/ragout-2.3/ragout/maf2synteny/cpp_impl» g++ -Wl,-z,relro -Wl,-z,now breakpoint_graph.o compress_algorithms.o maf_tools.o main.o permutation.o -o /build/ragout-2.3/bin/ragout-maf2synteny -make[2]: Leaving directory '/build/ragout-2.3/ragout/maf2synteny/cpp_impl' -make[1]: Leaving directory '/build/ragout-2.3' +make[2]: uscita dalla directory «/build/ragout-2.3/ragout/maf2synteny/cpp_impl» +make[1]: uscita dalla directory «/build/ragout-2.3» running install_lib creating /build/ragout-2.3/debian/tmp/usr creating /build/ragout-2.3/debian/tmp/usr/lib creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9 creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/parser.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/tree.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/lexer.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/tokens.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder/merge_iters.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder/scaffolder.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder/output_generator.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder/__pycache__ copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder/scaffolder.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/utils.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/debug.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/datatypes.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/config.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data/ecoli.rcp -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data/DH1.fasta -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data/mg1655_contigs.fasta -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data/mg1655.coords -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/__pycache__/test_toy.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/test_toy.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap/overlap.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/scaffolder/merge_iters.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/cactus.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/synteny_backend.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/hal.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/sibelia.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/__pycache__ copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/hal.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/maf.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/cactus.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/synteny_backend/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/main.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap/overlap.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/overlap/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap/__pycache__ +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/tokens.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/tree.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/lexer.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/parser.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/newick/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/__pycache__ +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph/assembly_refine.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph/__pycache__ +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny/maf2synteny.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny/__pycache__ creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/chimera_detector.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/inferer.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/repeat_resolver.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/permutation.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/breakpoint_graph.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/repeat_resolver.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/breakpoint_graph.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/inferer.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/chimera_detector.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/breakpoint_graph/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/__version__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/six.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/datatypes.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/utils.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/config.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/debug.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/shared/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/__pycache__ creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny/phylogeny.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny/inferer.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny/__pycache__ copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny/inferer.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/phylogeny/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/main.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny/maf2synteny.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/maf2synteny/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/assembly_graph/assembly_refine.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/six.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/__version__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data/mg1655.coords -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data/mg1655_contigs.fasta -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data/DH1.fasta -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/data/ecoli.rcp -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/data +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/test_toy.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/tests/__pycache__/test_toy.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/__pycache__ creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers/phylogeny_parser.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers -creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/__pycache__ -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/__pycache__ copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers/fasta_parser.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers/recipe_parser.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers/phylogeny_parser.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers -copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/__init__.py -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/parser.py to parser.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/tree.py to tree.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/lexer.py to lexer.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/tokens.py to tokens.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder/merge_iters.py to merge_iters.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder/output_generator.py to output_generator.cpython-39.pyc +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/parsers/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/__pycache__ +creating /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/__pycache__ +copying /build/ragout-2.3/.pybuild/cpython3_3.9/build/ragout/__pycache__/__init__.cpython-39.pyc -> /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/__pycache__ byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder/scaffolder.py to scaffolder.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder/output_generator.py to output_generator.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/utils.py to utils.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/debug.py to debug.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/datatypes.py to datatypes.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/config.py to config.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/test_toy.py to test_toy.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap/overlap.py to overlap.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap/__init__.py to __init__.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/scaffolder/merge_iters.py to merge_iters.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/cactus.py to cactus.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/__init__.py to __init__.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/synteny_backend.py to synteny_backend.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/sibelia.py to sibelia.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/hal.py to hal.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/sibelia.py to sibelia.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/maf.py to maf.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/cactus.py to cactus.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/synteny_backend/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/chimera_detector.py to chimera_detector.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/inferer.py to inferer.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/main.py to main.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap/__init__.py to __init__.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/overlap/overlap.py to overlap.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/tokens.py to tokens.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/tree.py to tree.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/__init__.py to __init__.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/lexer.py to lexer.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/newick/parser.py to parser.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph/assembly_refine.py to assembly_refine.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph/__init__.py to __init__.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny/__init__.py to __init__.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny/maf2synteny.py to maf2synteny.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/repeat_resolver.py to repeat_resolver.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/permutation.py to permutation.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/breakpoint_graph.py to breakpoint_graph.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/repeat_resolver.py to repeat_resolver.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/breakpoint_graph.py to breakpoint_graph.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/inferer.py to inferer.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/breakpoint_graph/chimera_detector.py to chimera_detector.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/__version__.py to __version__.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/__init__.py to __init__.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/six.py to six.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/datatypes.py to datatypes.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/utils.py to utils.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/config.py to config.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/__init__.py to __init__.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/shared/debug.py to debug.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny/phylogeny.py to phylogeny.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny/inferer.py to inferer.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/main.py to main.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny/maf2synteny.py to maf2synteny.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/maf2synteny/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/assembly_graph/assembly_refine.py to assembly_refine.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/six.py to six.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/__version__.py to __version__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/phylogeny_parser.py to phylogeny_parser.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/phylogeny/inferer.py to inferer.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/test_toy.py to test_toy.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/tests/__init__.py to __init__.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/fasta_parser.py to fasta_parser.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/recipe_parser.py to recipe_parser.cpython-39.pyc +byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/phylogeny_parser.py to phylogeny_parser.cpython-39.pyc byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/parsers/__init__.py to __init__.cpython-39.pyc -byte-compiling /build/ragout-2.3/debian/tmp/usr/lib/python3.9/dist-packages/ragout/__init__.py to __init__.cpython-39.pyc running install_egg_info running egg_info creating ragout.egg-info @@ -813,10 +884,10 @@ Installing ragout script to /build/ragout-2.3/debian/tmp/usr/bin Installing C++ binaries debian/rules override_dh_install -make[1]: Entering directory '/build/ragout-2.3' +make[1]: ingresso nella directory «/build/ragout-2.3» dh_install find debian -name LICENSE -delete -make[1]: Leaving directory '/build/ragout-2.3' +make[1]: uscita dalla directory «/build/ragout-2.3» dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild @@ -842,9 +913,9 @@ dpkg-gencontrol: warning: Depends field of package ragout-examples: substitution variable ${python3:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild -dpkg-deb: building package 'ragout' in '../ragout_2.3-2_armhf.deb'. -dpkg-deb: building package 'ragout-dbgsym' in '../ragout-dbgsym_2.3-2_armhf.deb'. -dpkg-deb: building package 'ragout-examples' in '../ragout-examples_2.3-2_all.deb'. +dpkg-deb: generazione del pacchetto "ragout-dbgsym" in "../ragout-dbgsym_2.3-2_armhf.deb". +dpkg-deb: generazione del pacchetto "ragout" in "../ragout_2.3-2_armhf.deb". +dpkg-deb: generazione del pacchetto "ragout-examples" in "../ragout-examples_2.3-2_all.deb". dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../ragout_2.3-2_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -852,12 +923,14 @@ 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/28197/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/28197/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/5980 and its subdirectories -I: Current time: Tue Jul 20 08:03:33 -12 2021 -I: pbuilder-time-stamp: 1626811413 +I: removing directory /srv/workspace/pbuilder/28197 and its subdirectories +I: Current time: Wed Jul 21 10:15:15 +14 2021 +I: pbuilder-time-stamp: 1626812115