I: pbuilder: network access will be disabled during build I: Current time: Sun Jul 14 03:56:38 +14 2024 I: pbuilder-time-stamp: 1720878998 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [python-pyani_0.2.10-2.dsc] I: copying [./python-pyani_0.2.10.orig.tar.gz] I: copying [./python-pyani_0.2.10-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.GJJufx7d/trustedkeys.kbx': General error gpgv: Signature made Sat Mar 21 11:27:19 2020 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./python-pyani_0.2.10-2.dsc dpkg-source: info: extracting python-pyani in python-pyani-0.2.10 dpkg-source: info: unpacking python-pyani_0.2.10.orig.tar.gz dpkg-source: info: unpacking python-pyani_0.2.10-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/382324/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. 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 '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Jul 14 03:56 /bin/sh -> /bin/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/382324/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/382324/tmp/hooks/D02_print_environment starting I: set 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]="x86_64-pc-linux-gnu") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=20 ' DIRSTACK=() DISTRIBUTION=bullseye EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=f4eb9f03e23c4edda854a4dcae8ad82d LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-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=382324 PS4='+ ' 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/r-b-build.3kcnolSt/pbuilderrc_HXah --distribution bullseye --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.3kcnolSt/b2 --logfile b2/build.log python-pyani_0.2.10-2.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-22-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.94-1 (2024-06-21) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Mar 28 2022 bash -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 38984 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 38984 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 18424 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 43936 Sep 24 2020 cat -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash -rwxr-xr-x 1 root root 113664 Sep 24 2020 date -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd -rwxr-xr-x 1 root root 93936 Sep 24 2020 df -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir -rwxr-xr-x 1 root root 84440 Mar 29 00:09 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 39712 Sep 24 2020 echo -rwxr-xr-x 1 root root 28 Jan 25 2023 egrep -rwxr-xr-x 1 root root 39680 Sep 24 2020 false -rwxr-xr-x 1 root root 28 Jan 25 2023 fgrep -rwxr-xr-x 1 root root 69032 Mar 29 00:09 findmnt -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount -rwxr-xr-x 1 root root 203072 Jan 25 2023 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 98048 Apr 10 2022 gzip -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln -rwxr-xr-x 1 root root 56952 Feb 8 2020 login -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls -rwxr-xr-x 1 root root 149736 Mar 29 00:09 lsblk -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp -rwxr-xr-x 1 root root 59632 Mar 29 00:09 more -rwsr-xr-x 1 root root 55528 Mar 29 00:09 mount -rwxr-xr-x 1 root root 18664 Mar 29 00:09 mountpoint -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Dec 17 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd lrwxrwxrwx 1 root root 4 Mar 28 2022 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed lrwxrwxrwx 1 root root 9 Jul 14 03:56 sh -> /bin/bash -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty -rwsr-xr-x 1 root root 71912 Mar 29 00:09 su -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync -rwxr-xr-x 1 root root 531928 Jan 20 23:59 tar -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch -rwxr-xr-x 1 root root 39680 Sep 24 2020 true -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Mar 29 00:09 umount -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir -rwxr-xr-x 1 root root 63744 Mar 29 00:09 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 5898 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8049 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/382324/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 12), dh-python, python3-all-dev, python3-setuptools, python3-biopython, python3-matplotlib, python3-pandas, python3-scipy, python3-seaborn, mummer, ncbi-blast+, python3-nose dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19711 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-seaborn; however: Package python3-seaborn is not installed. pbuilder-satisfydepends-dummy depends on mummer; however: Package mummer is not installed. pbuilder-satisfydepends-dummy depends on ncbi-blast+; however: Package ncbi-blast+ is not installed. pbuilder-satisfydepends-dummy depends on python3-nose; however: Package python3-nose is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-lyx{a} gawk{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libgfortran5{a} libicu67{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} liblmdb0{a} libmagic-mgc{a} libmagic1{a} libmbedcrypto3{a} libmbedtls12{a} libmbedx509-0{a} libmd0{a} libmpdec3{a} libpipeline1{a} libpng16-16{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.9{a} libpython3.9-dev{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} libsigsegv2{a} libsub-override-perl{a} libtcl8.6{a} libtiff5{a} libtk8.6{a} libtool{a} libuchardet0{a} libwebp6{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxss1{a} m4{a} mailcap{a} man-db{a} media-types{a} mime-support{a} mummer{a} ncbi-blast+{a} ncbi-data{a} po-debconf{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-all-dev{a} python3-biopython{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-kiwisolver{a} python3-lib2to3{a} python3-matplotlib{a} python3-minimal{a} python3-nose{a} python3-numpy{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pkg-resources{a} python3-pyparsing{a} python3-reportlab{a} python3-reportlab-accel{a} python3-scipy{a} python3-seaborn{a} python3-setuptools{a} python3-six{a} python3-tk{a} python3-tz{a} python3.9{a} python3.9-dev{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} tk8.6-blt2.5{a} ttf-bitstream-vera{a} ucf{a} x11-common{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx python-biopython-doc python3-bottleneck python3-bs4 python3-html5lib python3-jinja2 python3-lxml python3-numba python3-numexpr python3-odf python3-olefile python3-openpyxl python3-patsy python3-renderpm python3-tables python3-xlwt wget 0 packages upgraded, 129 newly installed, 0 to remove and 0 not upgraded. Need to get 91.2 MB of archives. After unpacking 375 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8+deb11u2 [146 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 gawk amd64 1:5.1.0-1 [605 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 mailcap all 3.69 [31.7 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 mime-support all 3.66 [10.9 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3+deb11u1 [273 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3+deb11u1 [128 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3+deb11u1 [69.2 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 ucf all 3.0043 [74.0 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libtcl8.6 amd64 8.6.11+dfsg-1 [1018 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1+deb11u1 [418 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 ttf-bitstream-vera all 1.10-8.1 [223 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 fontconfig-config all 2.13.1-4.2 [281 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 libfontconfig1 amd64 2.13.1-4.2 [347 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1+deb11u1 [108 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 libx11-data all 2:1.7.2-1+deb11u2 [311 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 libx11-6 amd64 2:1.7.2-1+deb11u2 [772 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 x11-common all 1:7.7+22 [252 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 libtk8.6 amd64 8.6.11-2 [780 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4.1 [593 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 blt amd64 2.5.3+dfsg-4.1 [14.9 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7+deb11u4 [693 kB] Get: 66 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 67 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 68 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 69 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 70 http://deb.debian.org/debian bullseye/main amd64 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 71 http://deb.debian.org/debian bullseye/main amd64 python3-distutils all 3.9.2-1 [143 kB] Get: 72 http://deb.debian.org/debian bullseye/main amd64 dh-python all 4.20201102+nmu1 [99.4 kB] Get: 73 http://deb.debian.org/debian bullseye/main amd64 fonts-lyx all 2.3.6-1 [205 kB] Get: 74 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3+deb11u1 [153 kB] Get: 75 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get: 76 http://deb.debian.org/debian bullseye/main amd64 libexpat1-dev amd64 2.2.10-2+deb11u5 [141 kB] Get: 77 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get: 78 http://deb.debian.org/debian bullseye/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get: 79 http://deb.debian.org/debian bullseye/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get: 80 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get: 81 http://deb.debian.org/debian bullseye/main amd64 libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get: 82 http://deb.debian.org/debian bullseye/main amd64 libjs-jquery-ui all 1.12.1+dfsg-8+deb11u2 [232 kB] Get: 83 http://deb.debian.org/debian bullseye/main amd64 libjs-underscore all 1.9.1~dfsg-3 [100 kB] Get: 84 http://deb.debian.org/debian bullseye/main amd64 libjs-sphinxdoc all 3.4.3-2 [127 kB] Get: 85 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3+deb11u1 [2166 kB] Get: 86 http://deb.debian.org/debian bullseye/main amd64 liblbfgsb0 amd64 3.0+dfsg.3-9 [28.5 kB] Get: 87 http://deb.debian.org/debian bullseye/main amd64 liblcms2-2 amd64 2.12~rc1-2 [150 kB] Get: 88 http://deb.debian.org/debian bullseye/main amd64 liblmdb0 amd64 0.9.24-1 [45.0 kB] Get: 89 http://deb.debian.org/debian bullseye/main amd64 libmbedcrypto3 amd64 2.16.9-0.1 [219 kB] Get: 90 http://deb.debian.org/debian bullseye/main amd64 libmbedx509-0 amd64 2.16.9-0.1 [109 kB] Get: 91 http://deb.debian.org/debian bullseye/main amd64 libmbedtls12 amd64 2.16.9-0.1 [139 kB] Get: 92 http://deb.debian.org/debian bullseye/main amd64 libpython3.9 amd64 3.9.2-1 [1691 kB] Get: 93 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-dev amd64 3.9.2-1 [4028 kB] Get: 94 http://deb.debian.org/debian bullseye/main amd64 libpython3-dev amd64 3.9.2-3 [21.7 kB] Get: 95 http://deb.debian.org/debian bullseye/main amd64 libpython3-all-dev amd64 3.9.2-3 [1068 B] Get: 96 http://deb.debian.org/debian bullseye/main amd64 libwebp6 amd64 0.6.1-2.1+deb11u2 [259 kB] Get: 97 http://deb.debian.org/debian bullseye/main amd64 libtiff5 amd64 4.2.0-1+deb11u5 [290 kB] Get: 98 http://deb.debian.org/debian bullseye/main amd64 libwebpdemux2 amd64 0.6.1-2.1+deb11u2 [87.8 kB] Get: 99 http://deb.debian.org/debian bullseye/main amd64 libwebpmux3 amd64 0.6.1-2.1+deb11u2 [97.7 kB] Get: 100 http://deb.debian.org/debian bullseye/main amd64 mummer amd64 3.23+dfsg-7 [664 kB] Get: 101 http://deb.debian.org/debian bullseye/main amd64 ncbi-data all 6.1.20170106+dfsg1-9 [3556 kB] Get: 102 http://deb.debian.org/debian bullseye/main amd64 ncbi-blast+ amd64 2.11.0+ds-1 [11.3 MB] Get: 103 http://deb.debian.org/debian bullseye/main amd64 python-matplotlib-data all 3.3.4-1 [4153 kB] Get: 104 http://deb.debian.org/debian bullseye/main amd64 python3-all amd64 3.9.2-3 [1056 B] Get: 105 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2+deb11u2 [191 kB] Get: 106 http://deb.debian.org/debian bullseye/main amd64 python3.9-dev amd64 3.9.2-1 [515 kB] Get: 107 http://deb.debian.org/debian bullseye/main amd64 python3-dev amd64 3.9.2-3 [24.8 kB] Get: 108 http://deb.debian.org/debian bullseye/main amd64 python3-all-dev amd64 3.9.2-3 [1064 B] Get: 109 http://deb.debian.org/debian bullseye/main amd64 python3-pkg-resources all 52.0.0-4 [190 kB] Get: 110 http://deb.debian.org/debian bullseye/main amd64 python3-numpy amd64 1:1.19.5-1 [2693 kB] Get: 111 http://deb.debian.org/debian bullseye/main amd64 python3-reportlab-accel amd64 3.5.59-2 [39.1 kB] Get: 112 http://deb.debian.org/debian bullseye/main amd64 python3-pil amd64 8.1.2+dfsg-0.3+deb11u2 [446 kB] Get: 113 http://deb.debian.org/debian bullseye/main amd64 python3-reportlab all 3.5.59-2 [575 kB] Get: 114 http://deb.debian.org/debian bullseye/main amd64 python3-biopython amd64 1.78+dfsg-4 [1402 kB] Get: 115 http://deb.debian.org/debian bullseye/main amd64 python3-six all 1.16.0-2 [17.5 kB] Get: 116 http://deb.debian.org/debian bullseye/main amd64 python3-cycler all 0.10.0-3 [8084 B] Get: 117 http://deb.debian.org/debian bullseye/main amd64 python3-dateutil all 2.8.1-6 [79.2 kB] Get: 118 http://deb.debian.org/debian bullseye/main amd64 python3-decorator all 4.4.2-2 [15.8 kB] Get: 119 http://deb.debian.org/debian bullseye/main amd64 python3-kiwisolver amd64 1.3.1-1+b1 [55.7 kB] Get: 120 http://deb.debian.org/debian bullseye/main amd64 python3-pyparsing all 2.4.7-1 [109 kB] Get: 121 http://deb.debian.org/debian bullseye/main amd64 python3-matplotlib amd64 3.3.4-1 [4163 kB] Get: 122 http://deb.debian.org/debian bullseye/main amd64 python3-nose all 1.3.7-7 [133 kB] Get: 123 http://deb.debian.org/debian bullseye/main amd64 python3-tz all 2021.1-1 [34.8 kB] Get: 124 http://deb.debian.org/debian bullseye/main amd64 python3-pandas-lib amd64 1.1.5+dfsg-2 [3287 kB] Get: 125 http://deb.debian.org/debian bullseye/main amd64 python3-pandas all 1.1.5+dfsg-2 [2096 kB] Get: 126 http://deb.debian.org/debian bullseye/main amd64 python3-scipy amd64 1.6.0-2 [12.3 MB] Get: 127 http://deb.debian.org/debian bullseye/main amd64 python3-tk amd64 3.9.2-1 [101 kB] Get: 128 http://deb.debian.org/debian bullseye/main amd64 python3-seaborn all 0.11.1-1 [206 kB] Get: 129 http://deb.debian.org/debian bullseye/main amd64 python3-setuptools all 52.0.0-4 [366 kB] Fetched 91.2 MB in 2s (54.3 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 ... 19711 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-8+deb11u2_amd64.deb ... Unpacking bsdextrautils (2.36.1-8+deb11u2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../1-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. 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Selecting previously unselected package gawk. (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 ... 20317 files and directories currently installed.) Preparing to unpack .../gawk_1%3a5.1.0-1_amd64.deb ... Unpacking gawk (1:5.1.0-1) ... Selecting previously unselected package libpython3.9-minimal:amd64. Preparing to unpack .../libpython3.9-minimal_3.9.2-1_amd64.deb ... Unpacking libpython3.9-minimal:amd64 (3.9.2-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.2.10-2+deb11u5_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2+deb11u5) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../python3.9-minimal_3.9.2-1_amd64.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:amd64 (3.9.2-1) ... Setting up libexpat1:amd64 (2.2.10-2+deb11u5) ... Setting up python3.9-minimal (3.9.2-1) ... Selecting previously unselected package python3-minimal. (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 ... 20786 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_amd64.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package mailcap. Preparing to unpack .../2-mailcap_3.69_all.deb ... Unpacking mailcap (3.69) ... Selecting previously unselected package mime-support. Preparing to unpack .../3-mime-support_3.66_all.deb ... Unpacking mime-support (3.66) ... Selecting previously unselected package libmpdec3:amd64. Preparing to unpack .../4-libmpdec3_2.5.1-1_amd64.deb ... Unpacking libmpdec3:amd64 (2.5.1-1) ... Selecting previously unselected package libpython3.9-stdlib:amd64. Preparing to unpack .../5-libpython3.9-stdlib_3.9.2-1_amd64.deb ... Unpacking libpython3.9-stdlib:amd64 (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../6-python3.9_3.9.2-1_amd64.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../7-libpython3-stdlib_3.9.2-3_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... Selecting previously unselected package python3. (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 ... 21207 files and directories currently installed.) Preparing to unpack .../000-python3_3.9.2-3_amd64.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../002-libmagic-mgc_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking libmagic-mgc (1:5.39-3+deb11u1) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../003-libmagic1_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking libmagic1:amd64 (1:5.39-3+deb11u1) ... Selecting previously unselected package file. Preparing to unpack .../004-file_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking file (1:5.39-3+deb11u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../005-gettext-base_0.21-4_amd64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package ucf. Preparing to unpack .../006-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package m4. Preparing to unpack .../007-m4_1.4.18-5_amd64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../008-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. 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Preparing to unpack .../015-libfreetype6_2.10.4+dfsg-1+deb11u1_amd64.deb ... Unpacking libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Selecting previously unselected package ttf-bitstream-vera. Preparing to unpack .../016-ttf-bitstream-vera_1.10-8.1_all.deb ... Unpacking ttf-bitstream-vera (1.10-8.1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../017-fontconfig-config_2.13.1-4.2_all.deb ... Unpacking fontconfig-config (2.13.1-4.2) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../018-libfontconfig1_2.13.1-4.2_amd64.deb ... Unpacking libfontconfig1:amd64 (2.13.1-4.2) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../019-libxau6_1%3a1.0.9-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1) ... Selecting previously unselected package libmd0:amd64. Preparing to unpack .../020-libmd0_1.0.3-3_amd64.deb ... Unpacking libmd0:amd64 (1.0.3-3) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../021-libbsd0_0.11.3-1+deb11u1_amd64.deb ... Unpacking libbsd0:amd64 (0.11.3-1+deb11u1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../022-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../023-libxcb1_1.14-3_amd64.deb ... Unpacking libxcb1:amd64 (1.14-3) ... Selecting previously unselected package libx11-data. Preparing to unpack .../024-libx11-data_2%3a1.7.2-1+deb11u2_all.deb ... Unpacking libx11-data (2:1.7.2-1+deb11u2) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../025-libx11-6_2%3a1.7.2-1+deb11u2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.7.2-1+deb11u2) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../026-libxrender1_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1) ... 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Unpacking python3-setuptools (52.0.0-4) ... Setting up media-types (4.0.0) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up liblmdb0:amd64 (0.9.24-1) ... Setting up liblcms2-2:amd64 (2.12~rc1-2) ... Setting up ncbi-data (6.1.20170106+dfsg1-9) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up ttf-bitstream-vera (1.10-8.1) ... Setting up bsdextrautils (2.36.1-8+deb11u2) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3+deb11u1) ... Setting up gawk (1:5.1.0-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up fonts-lyx (2.3.6-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libmagic1:amd64 (1:5.39-3+deb11u1) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up m4 (1.4.18-5) ... Setting up file (1:5.39-3+deb11u1) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:amd64 (3.9.0-3+deb11u1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libexpat1-dev:amd64 (2.2.10-2+deb11u5) ... Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up libx11-data (2:1.7.2-1+deb11u2) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up libtcl8.6:amd64 (8.6.11+dfsg-1) ... Setting up autopoint (0.21-4) ... Setting up libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up autoconf (2.69-14) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Setting up libmd0:amd64 (1.0.3-3) ... 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Setting up libx11-6:amd64 (2:1.7.2-1+deb11u2) ... Setting up python3.9 (3.9.2-1) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.3-9) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libxext6:amd64 (2:1.3.3-1.1) ... Setting up libpython3.9-dev:amd64 (3.9.2-1) ... Setting up python3 (3.9.2-3) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-tz (2021.1-1) ... Setting up ncbi-blast+ (2.11.0+ds-1) ... Setting up python3-six (1.16.0-2) ... Setting up python3-pil:amd64 (8.1.2+dfsg-0.3+deb11u2) ... Setting up python3-decorator (4.4.2-2) ... Setting up python3-pyparsing (2.4.7-1) ... Setting up python3-cycler (0.10.0-3) ... Setting up python3-reportlab-accel:amd64 (3.5.59-2) ... Setting up python3-kiwisolver (1.3.1-1+b1) ... Setting up python3-reportlab (3.5.59-2) ... Setting up python3.9-dev (3.9.2-1) ... Setting up python3-dateutil (2.8.1-6) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libfontconfig1:amd64 (2.13.1-4.2) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-distutils (3.9.2-1) ... Setting up dh-python (4.20201102+nmu1) ... Setting up libxft2:amd64 (2.3.2-2) ... Setting up libpython3-dev:amd64 (3.9.2-3) ... Setting up python3-setuptools (52.0.0-4) ... Setting up libtk8.6:amd64 (8.6.11-2) ... Setting up python3-all (3.9.2-3) ... Setting up debhelper (13.3.4) ... Setting up python3-nose (1.3.7-7) ... Setting up libpython3-all-dev:amd64 (3.9.2-3) ... Setting up python3-dev (3.9.2-3) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-biopython (1.78+dfsg-4) ... Setting up python3-all-dev (3.9.2-3) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1) ... Setting up python3-matplotlib (3.3.4-1) ... Setting up python3-scipy (1.6.0-2) ... Setting up blt (2.5.3+dfsg-4.1) ... Setting up python3-pandas-lib:amd64 (1.1.5+dfsg-2) ... Setting up python3-tk:amd64 (3.9.2-1) ... Setting up python3-pandas (1.1.5+dfsg-2) ... Setting up python3-seaborn (0.11.1-1) ... Processing triggers for libc-bin (2.31-13+deb11u10) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/382324/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for bullseye I: user script /srv/workspace/pbuilder/382324/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/python-pyani-0.2.10/ && 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-pyani_0.2.10-2_source.changes dpkg-buildpackage: info: source package python-pyani dpkg-buildpackage: info: source version 0.2.10-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Sao I Kuan dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/python-pyani-0.2.10' dh_auto_clean I: pybuild base:232: python3.9 setup.py clean running clean removing '/build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it rm -f pyani.egg-info/PKG-INFO pyani.egg-info/SOURCES.txt pyani.egg-info/dependency_links.txt pyani.egg-info/requires.txt pyani.egg-info/top_level.txt make[1]: Leaving directory '/build/reproducible-path/python-pyani-0.2.10' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:232: python3.9 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/run_multiprocessing.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/tetra.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/pyani_jobs.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/run_sge.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/pyani_files.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/__init__.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/pyani_graphics.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/anim.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/pyani_config.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/pyani_tools.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani copying pyani/anib.py -> /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani running egg_info creating pyani.egg-info writing pyani.egg-info/PKG-INFO writing dependency_links to pyani.egg-info/dependency_links.txt writing requirements to pyani.egg-info/requires.txt writing top-level names to pyani.egg-info/top_level.txt writing manifest file 'pyani.egg-info/SOURCES.txt' reading manifest file 'pyani.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'pyani.egg-info/SOURCES.txt' running build_scripts creating build creating build/scripts-3.9 copying and adjusting bin/average_nucleotide_identity.py -> build/scripts-3.9 copying and adjusting bin/genbank_get_genomes_by_taxon.py -> build/scripts-3.9 copying and adjusting bin/delta_filter_wrapper.py -> build/scripts-3.9 changing mode of build/scripts-3.9/average_nucleotide_identity.py from 644 to 755 changing mode of build/scripts-3.9/genbank_get_genomes_by_taxon.py from 644 to 755 changing mode of build/scripts-3.9/delta_filter_wrapper.py from 644 to 755 dh_auto_test -O--buildsystem=pybuild I: pybuild base:232: cd /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build; python3.9 -m nose -v tests /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/tests/test_anib.py:59: FutureWarning: pandas.util.testing is deprecated. Use the functions in the public API at pandas.testing instead. from pandas.util.testing import assert_frame_equal generate BLAST+ db commands. ... ok generate BLASTN+ commands. ... ok generate dictionary of BLASTN+ database jobs. ... ok generate BLASTN+ command-line. ... ok create jobgraph for BLASTN+ jobs. ... ok generate makeblastdb command-line. ... ok fragment files for ANIb/ANIblastall. ... ok parses directory of .blast_tab output. ... ok parses NUCmer .delta/.filter file. ... ok processes directory of .delta files into ANIResults. ... ok generate NUCmer command line with maxmatch. ... ok generate multiple abstract NUCmer/delta-filter command-lines. ... ok generate dependency tree of NUCmer/delta-filter jobs. ... ok generate single abstract NUCmer/delta-filter command-line. ... ok ANIb results concordant with JSpecies. ... ok ANIm results concordant with JSpecies. ... ok TETRA results concordant with JSpecies. ... ok Test Biopython import. ... ok Test matplotlib import. ... ok Test numpy import. ... ok Test pandas import. ... ok Test scipy import. ... ok Test that BLAST+ is runnable. ... ok Test that NUCmer is runnable. ... ok Write .png graphics with mpl ... ok Write .svg graphics with mpl ... ok Write .pdf graphics with mpl ... ok Write .png graphics with seaborn ... ok Write .svg graphics with seaborn ... ok Write .pdf graphics with seaborn ... ok create dummy job with dependency. ... ok create a dummy job. ... ok create dummy job with command. ... ok create dummy job, add and remove dependency. ... ok create dummy 1-parameter sweep jobgroup. ... ok create dummy 2-parameter sweep jobgroup. ... ok add jobgroup dependency. ... ok create dummy jobgroup. ... ok add and remove jobgroup dependency. ... ok module builds command sets. ... ok module runs dependency graph. ... ok multiprocessing() runs basic jobs. ... ok Test parsing of NUCmer delta file. ... ok TETRA correlation calculated correctly. ... ok detects unambiguous IUPAC symbols correctly. ... ok TETRA Z-score calculated correctly. ... ok ---------------------------------------------------------------------- Ran 46 tests in 384.595s OK create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:232: /usr/bin/python3 setup.py install --root /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani running install running build running build_py running egg_info writing pyani.egg-info/PKG-INFO writing dependency_links to pyani.egg-info/dependency_links.txt writing requirements to pyani.egg-info/requires.txt writing top-level names to pyani.egg-info/top_level.txt reading manifest file 'pyani.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'pyani.egg-info/SOURCES.txt' running build_scripts running install_lib creating /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr creating /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib creating /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9 creating /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages creating /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/run_multiprocessing.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/tetra.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani creating /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/pyani_files.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/pyani_jobs.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/anim.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/anib.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/tetra.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/pyani_graphics.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/pyani_tools.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/__init__.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/run_multiprocessing.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__pycache__/pyani_config.cpython-39.pyc -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__pycache__ copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/pyani_jobs.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/run_sge.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/pyani_files.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/__init__.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/pyani_graphics.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/anim.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/pyani_config.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/pyani_tools.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani copying /build/reproducible-path/python-pyani-0.2.10/.pybuild/cpython3_3.9_pyani/build/pyani/anib.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/run_multiprocessing.py to run_multiprocessing.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/tetra.py to tetra.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/pyani_jobs.py to pyani_jobs.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/run_sge.py to run_sge.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/pyani_files.py to pyani_files.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/__init__.py to __init__.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/pyani_graphics.py to pyani_graphics.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/anim.py to anim.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/pyani_config.py to pyani_config.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/pyani_tools.py to pyani_tools.cpython-39.pyc byte-compiling /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani/anib.py to anib.cpython-39.pyc running install_egg_info Copying pyani.egg-info to /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/lib/python3.9/dist-packages/pyani-0.2.10.egg-info Skipping SOURCES.txt running install_scripts creating /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/bin copying build/scripts-3.9/genbank_get_genomes_by_taxon.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/bin copying build/scripts-3.9/delta_filter_wrapper.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/bin copying build/scripts-3.9/average_nucleotide_identity.py -> /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/bin changing mode of /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/bin/genbank_get_genomes_by_taxon.py to 755 changing mode of /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/bin/delta_filter_wrapper.py to 755 changing mode of /build/reproducible-path/python-pyani-0.2.10/debian/python3-pyani/usr/bin/average_nucleotide_identity.py to 755 dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/python-pyani-0.2.10' dh_installman --language=C make[1]: Leaving directory '/build/reproducible-path/python-pyani-0.2.10' dh_python3 -O--buildsystem=pybuild dh_installinit -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -O--buildsystem=pybuild dh_strip -O--buildsystem=pybuild dh_makeshlibs -O--buildsystem=pybuild dh_shlibdeps -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-pyani' in '../python3-pyani_0.2.10-2_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../python-pyani_0.2.10-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/382324/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/382324/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/382324 and its subdirectories I: Current time: Sun Jul 14 04:05:15 +14 2024 I: pbuilder-time-stamp: 1720879515