Start: 2022-11-30 17:33:28 GMT [stretch] Package: gasic Version: 0.0.r19-1 Installed-Size: 74 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python:any (>= 2.6.6-7~), python-scipy, python-numpy, python-biopython, python-pysam, python-matplotlib, bowtie, bowtie2, bwa, seqan-apps Description: genome abundance similarity correction Homepage: http://sourceforge.net/projects/gasic/ Description-md5: bdb1fbe60cfde219955bdb0d4f72e27c Section: science Priority: optional Filename: pool/main/g/gasic/gasic_0.0.r19-1_amd64.deb Size: 19922 MD5sum: 72c96ac61c52ec65dab1caeee027c422 SHA256: cf8500919e647641eba13e8fc31d18a0d74640eb895016f01ce0e83316b16bc1 [buster] Package: gasic Version: 0.0.r19-4 Installed-Size: 74 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python:any (>= 2.6.6-7~), python-scipy, python-numpy, python-biopython, python-pysam, python-matplotlib, bowtie, bowtie2, bwa, seqan-apps Description: genome abundance similarity correction Homepage: http://sourceforge.net/projects/gasic/ Description-md5: bdb1fbe60cfde219955bdb0d4f72e27c Section: science Priority: optional Filename: pool/main/g/gasic/gasic_0.0.r19-4_amd64.deb Size: 20260 MD5sum: 96971d0a1e8887a5cabac3ebac20b47b SHA256: d44088f8b948ca52a0fa6d2236209740b6dc0174a56726626fbaf979811c63e8 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --upgrade-before-dist-upgrade --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2Xbuster-rcmd/reference-chroot-metadata.dat --apt gasic=0.0.r19-4 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --upgrade-before-dist-upgrade --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2Xbuster-rcmd/reference-chroot-metadata.dat --apt gasic=0.0.r19-4 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-19-amd64 #1 SMP Debian 5.10.149-2 (2022-10-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpfq5o9w1n 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpfq5o9w1n 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/proc'] 0m1.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/proc'] 0m1.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/pts'] 0m1.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/pts'] 0m1.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/ptmx'] 0m1.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/ptmx'] 0m1.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/console'] 0m1.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/console'] 0m1.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/shm'] 0m1.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/shm'] 0m1.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m1.2s DEBUG: Created policy-rc.d and chmodded it. 0m1.2s DEBUG: Created resolv.conf. 0m1.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpfq5o9w1n/tmp/scripts/ 0m1.2s INFO: Running scripts post_chroot_unpack 0m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', 'update'] 0m1.9s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', 'update'] 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-yf', 'dist-upgrade'] 0m2.2s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-yf', 'dist-upgrade'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s INFO: Running scripts post_setup 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_dummy_users'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_dummy_users'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_forbid_home'] 0m3.3s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_forbid_home'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.3s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_minimize'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_minimize'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_zz_backports'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_setup_zz_backports'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.3s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.10 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u1 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.25 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u1 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u1 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 install ok installed gzip gzip 1.6-5+b1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.10 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+b1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpcre3:amd64 libpcre3 2:8.39-3 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u1 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u12 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u12 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed login login 1:4.4-4.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.3s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stretch2Xbuster-rcmd/reference-chroot-metadata.dat 0m3.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 0m3.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 0m3.6s INFO: Running scripts is_testable 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/is_testable_uninstallable'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/is_testable_uninstallable'] 0m3.6s INFO: Running scripts pre_test 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_test_exceptions'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_test_exceptions'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_test_root_password'] 0m3.6s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_test_root_password'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'show', '--no-all-versions', 'gasic'] 0m3.7s DUMP: Package: gasic Version: 0.0.r19-1 Installed-Size: 74 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python:any (>= 2.6.6-7~), python-scipy, python-numpy, python-biopython, python-pysam, python-matplotlib, bowtie, bowtie2, bwa, seqan-apps Description-en: genome abundance similarity correction One goal of sequencing based metagenomic analysis is the quantitative taxonomic assessment of microbial community compositions. However, the majority of approaches either quantify at low resolution (e.g. at phylum level) or have severe problems discerning highly similar species. Yet, accurate quantification on species level is desirable in applications such as metagenomic diagnostics or community comparison. GASiC is a method to correct read alignment results for the ambiguities imposed by similarities of genomes. It has superior performance over existing methods. Description-md5: bdb1fbe60cfde219955bdb0d4f72e27c Homepage: http://sourceforge.net/projects/gasic/ Section: science Priority: optional Filename: pool/main/g/gasic/gasic_0.0.r19-1_amd64.deb Size: 19922 MD5sum: 72c96ac61c52ec65dab1caeee027c422 SHA256: cf8500919e647641eba13e8fc31d18a0d74640eb895016f01ce0e83316b16bc1 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'show', '--no-all-versions', 'gasic'] 0m3.7s INFO: apt-cache knows about the following packages: gasic 0m3.7s INFO: Running scripts pre_install 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_database-server'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_database-server'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_exceptions'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_exceptions'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_extras'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_extras'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy'] 0m3.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy', 'gasic'] 0m3.9s DUMP: gasic: Installed: (none) Candidate: 0.0.r19-1 Version table: 0.0.r19-1 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy', 'gasic'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-y', 'install', 'gasic'] 0m41.5s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: binutils blt bowtie bowtie2 bwa bzip2 ca-certificates cpp cpp-6 dbus file fontconfig fontconfig-config fonts-lyx g++ g++-6 gcc gcc-6 gnome-icon-theme gsfonts gtk-update-icon-cache hicolor-icon-theme javascript-common krb5-locales libapparmor1 libart-2.0-2 libasan3 libatk1.0-0 libatk1.0-data libatomic1 libavahi-client3 libavahi-common-data libavahi-common3 libblas-common libblas3 libbsd0 libc-dev-bin libc6-dev libcairo2 libcc1-0 libcilkrts5 libcroco3 libcups2 libcurl3-gnutls libdatrie1 libdbus-1-3 libexpat1 libexpat1-dev libffi6 libfontconfig1 libfreetype6 libgail-common libgail18 libgcc-6-dev libgdbm3 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgfortran3 libglade2-0 libglib2.0-0 libglib2.0-data libgmp10 libgnutls30 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libharfbuzz0b libhogweed4 libhts1 libicu57 libidn11 libidn2-0 libisl15 libitm1 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblsan0 libmagic-mgc libmagic1 libmpc3 libmpfr4 libmpx2 libnettle6 libnghttp2-14 libp11-kit0 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libperl5.24 libpixman-1-0 libpng16-16 libpsl5 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librsvg2-2 librsvg2-common librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsqlite3-0 libssh2-1 libssl1.1 libstdc++-6-dev libtasn1-6 libtbb2 libtcl8.6 libthai-data libthai0 libtiff5 libtk8.6 libtsan0 libubsan0 libunistring0 libwebp6 libwebpdemux2 libwebpmux2 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxss1 linux-libc-dev lsb-base manpages manpages-dev mime-support ncbi-blast+ ncbi-data netbase openssl perl perl-modules-5.24 publicsuffix python python-biopython python-biopython-doc python-cairo python-cycler python-dateutil python-decorator python-dev python-functools32 python-glade2 python-gobject-2 python-gtk2 python-imaging python-matplotlib python-matplotlib-data python-minimal python-numpy python-pil python-pyparsing python-pysam python-renderpm python-reportlab python-reportlab-accel python-scipy python-six python-subprocess32 python-tk python-tz python2.7 python2.7-dev python2.7-minimal readline-common rename seqan-apps sgml-base shared-mime-info tk8.6-blt2.5 ttf-bitstream-vera tzdata ucf x11-common xdg-user-dirs xml-core xz-utils Suggested packages: binutils-doc blt-demo bowtie-examples bowtie2-examples samtools bzip2-doc cpp-doc gcc-6-locales default-dbus-session-bus | dbus-session-bus g++-multilib g++-6-multilib gcc-6-doc libstdc++6-6-dbg gcc-multilib make autoconf automake libtool flex bison gdb gcc-doc gcc-6-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan3-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx2-dbg libquadmath0-dbg apache2 | lighttpd | httpd glibc-doc cups-common gnutls-bin krb5-doc krb5-user gvfs libjs-jquery-ui-docs liblcms2-utils librsvg2-bin libsasl2-modules-gssapi-mit | libsasl2-modules-gssapi-heimdal libsasl2-modules-ldap libsasl2-modules-otp libsasl2-modules-sql libstdc++-6-doc tcl8.6 tk8.6 man-browser perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl python-doc clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python-mysqldb python-rdflib python-psycopg2 raxml t-coffee wise python-cycler-doc python-gtk2-doc python-gobject-2-dbg dvipng ffmpeg gir1.2-gtk-3.0 ghostscript inkscape ipython python-cairocffi python-configobj python-excelerator python-gobject python-matplotlib-doc python-nose python-qt4 python-sip python-tornado python-traits python-wxgtk3.0 texlive-extra-utils texlive-latex-extra ttf-staypuft gfortran python-numpy-dbg python-numpy-doc python-pil-doc python-pil-dbg python-pyparsing-doc python-renderpm-dbg pdf-viewer python-egenix-mxtexttools python-reportlab-doc python-scipy-doc tix python-tk-dbg python2.7-doc binfmt-support readline-doc sgml-base-doc debhelper The following NEW packages will be installed: binutils blt bowtie bowtie2 bwa bzip2 ca-certificates cpp cpp-6 dbus file fontconfig fontconfig-config fonts-lyx g++ g++-6 gasic gcc gcc-6 gnome-icon-theme gsfonts gtk-update-icon-cache hicolor-icon-theme javascript-common krb5-locales libapparmor1 libart-2.0-2 libasan3 libatk1.0-0 libatk1.0-data libatomic1 libavahi-client3 libavahi-common-data libavahi-common3 libblas-common libblas3 libbsd0 libc-dev-bin libc6-dev libcairo2 libcc1-0 libcilkrts5 libcroco3 libcups2 libcurl3-gnutls libdatrie1 libdbus-1-3 libexpat1 libexpat1-dev libffi6 libfontconfig1 libfreetype6 libgail-common libgail18 libgcc-6-dev libgdbm3 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgfortran3 libglade2-0 libglib2.0-0 libglib2.0-data libgmp10 libgnutls30 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libharfbuzz0b libhogweed4 libhts1 libicu57 libidn11 libidn2-0 libisl15 libitm1 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblsan0 libmagic-mgc libmagic1 libmpc3 libmpfr4 libmpx2 libnettle6 libnghttp2-14 libp11-kit0 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libperl5.24 libpixman-1-0 libpng16-16 libpsl5 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librsvg2-2 librsvg2-common librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsqlite3-0 libssh2-1 libssl1.1 libstdc++-6-dev libtasn1-6 libtbb2 libtcl8.6 libthai-data libthai0 libtiff5 libtk8.6 libtsan0 libubsan0 libunistring0 libwebp6 libwebpdemux2 libwebpmux2 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxss1 linux-libc-dev lsb-base manpages manpages-dev mime-support ncbi-blast+ ncbi-data netbase openssl perl perl-modules-5.24 publicsuffix python python-biopython python-biopython-doc python-cairo python-cycler python-dateutil python-decorator python-dev python-functools32 python-glade2 python-gobject-2 python-gtk2 python-imaging python-matplotlib python-matplotlib-data python-minimal python-numpy python-pil python-pyparsing python-pysam python-renderpm python-reportlab python-reportlab-accel python-scipy python-six python-subprocess32 python-tk python-tz python2.7 python2.7-dev python2.7-minimal readline-common rename seqan-apps sgml-base shared-mime-info tk8.6-blt2.5 ttf-bitstream-vera tzdata ucf x11-common xdg-user-dirs xml-core xz-utils 0 upgraded, 212 newly installed, 0 to remove and 0 not upgraded. Need to get 197 MB of archives. After this operation, 699 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian stretch/main amd64 perl-modules-5.24 all 5.24.1-3+deb9u7 [2723 kB] Get:2 http://deb.debian.org/debian stretch/main amd64 libgdbm3 amd64 1.8.3-14 [30.0 kB] Get:3 http://deb.debian.org/debian stretch/main amd64 libperl5.24 amd64 5.24.1-3+deb9u7 [3527 kB] Get:4 http://deb.debian.org/debian stretch/main amd64 perl amd64 5.24.1-3+deb9u7 [218 kB] Get:5 http://deb.debian.org/debian stretch/main amd64 libpython2.7-minimal amd64 2.7.13-2+deb9u3 [389 kB] Get:6 http://deb.debian.org/debian stretch/main amd64 python2.7-minimal amd64 2.7.13-2+deb9u3 [1382 kB] Get:7 http://deb.debian.org/debian stretch/main amd64 python-minimal amd64 2.7.13-2 [40.5 kB] Get:8 http://deb.debian.org/debian stretch/main amd64 mime-support all 3.60 [36.7 kB] Get:9 http://deb.debian.org/debian stretch/main amd64 libexpat1 amd64 2.2.0-2+deb9u3 [83.7 kB] Get:10 http://deb.debian.org/debian stretch/main amd64 libffi6 amd64 3.2.1-6 [20.4 kB] Get:11 http://deb.debian.org/debian stretch/main amd64 readline-common all 7.0-3 [70.4 kB] Get:12 http://deb.debian.org/debian stretch/main amd64 libreadline7 amd64 7.0-3 [151 kB] Get:13 http://deb.debian.org/debian stretch/main amd64 libsqlite3-0 amd64 3.16.2-5+deb9u1 [572 kB] Get:14 http://deb.debian.org/debian stretch/main amd64 libssl1.1 amd64 1.1.0l-1~deb9u1 [1358 kB] Get:15 http://deb.debian.org/debian stretch/main amd64 libpython2.7-stdlib amd64 2.7.13-2+deb9u3 [1897 kB] Get:16 http://deb.debian.org/debian stretch/main amd64 python2.7 amd64 2.7.13-2+deb9u3 [285 kB] Get:17 http://deb.debian.org/debian stretch/main amd64 libpython-stdlib amd64 2.7.13-2 [20.0 kB] Get:18 http://deb.debian.org/debian stretch/main amd64 python amd64 2.7.13-2 [154 kB] Get:19 http://deb.debian.org/debian stretch/main amd64 libpng16-16 amd64 1.6.28-1+deb9u1 [280 kB] Get:20 http://deb.debian.org/debian stretch/main amd64 libfreetype6 amd64 2.6.3-3.2+deb9u1 [438 kB] Get:21 http://deb.debian.org/debian stretch/main amd64 ucf all 3.0036 [70.2 kB] Get:22 http://deb.debian.org/debian stretch/main amd64 ttf-bitstream-vera all 1.10-8 [352 kB] Get:23 http://deb.debian.org/debian stretch/main amd64 fontconfig-config all 2.11.0-6.7 [271 kB] Get:24 http://deb.debian.org/debian stretch/main amd64 libfontconfig1 amd64 2.11.0-6.7+b1 [331 kB] Get:25 http://deb.debian.org/debian stretch/main amd64 fontconfig amd64 2.11.0-6.7+b1 [404 kB] Get:26 http://deb.debian.org/debian stretch/main amd64 libart-2.0-2 amd64 2.3.21-2 [72.7 kB] Get:27 http://deb.debian.org/debian stretch/main amd64 libglib2.0-0 amd64 2.50.3-2+deb9u2 [2692 kB] Get:28 http://deb.debian.org/debian stretch/main amd64 libatk1.0-data all 2.22.0-1 [172 kB] Get:29 http://deb.debian.org/debian stretch/main amd64 libatk1.0-0 amd64 2.22.0-1 [78.4 kB] Get:30 http://deb.debian.org/debian stretch/main amd64 libpixman-1-0 amd64 0.34.0-1 [530 kB] Get:31 http://deb.debian.org/debian stretch/main amd64 libxau6 amd64 1:1.0.8-1 [20.7 kB] Get:32 http://deb.debian.org/debian stretch/main amd64 libbsd0 amd64 0.8.3-1 [83.0 kB] Get:33 http://deb.debian.org/debian stretch/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:34 http://deb.debian.org/debian stretch/main amd64 libxcb1 amd64 1.12-1 [133 kB] Get:35 http://deb.debian.org/debian stretch/main amd64 libx11-data all 2:1.6.4-3+deb9u1 [287 kB] Get:36 http://deb.debian.org/debian stretch/main amd64 libx11-6 amd64 2:1.6.4-3+deb9u1 [748 kB] Get:37 http://deb.debian.org/debian stretch/main amd64 libxcb-render0 amd64 1.12-1 [105 kB] Get:38 http://deb.debian.org/debian stretch/main amd64 libxcb-shm0 amd64 1.12-1 [95.9 kB] Get:39 http://deb.debian.org/debian stretch/main amd64 libxext6 amd64 2:1.3.3-1+b2 [52.5 kB] Get:40 http://deb.debian.org/debian stretch/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:41 http://deb.debian.org/debian stretch/main amd64 libcairo2 amd64 1.14.8-1 [771 kB] Get:42 http://deb.debian.org/debian stretch/main amd64 libjpeg62-turbo amd64 1:1.5.1-2 [134 kB] Get:43 http://deb.debian.org/debian stretch/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:44 http://deb.debian.org/debian stretch/main amd64 libtiff5 amd64 4.0.8-2+deb9u5 [239 kB] Get:45 http://deb.debian.org/debian stretch/main amd64 libicu57 amd64 57.1-6+deb9u4 [7699 kB] Get:46 http://deb.debian.org/debian stretch/main amd64 libxml2 amd64 2.9.4+dfsg1-2.2+deb9u2 [920 kB] Get:47 http://deb.debian.org/debian stretch/main amd64 shared-mime-info amd64 1.8-1+deb9u1 [731 kB] Get:48 http://deb.debian.org/debian stretch/main amd64 libgdk-pixbuf2.0-common all 2.36.5-2+deb9u2 [311 kB] Get:49 http://deb.debian.org/debian stretch/main amd64 libgdk-pixbuf2.0-0 amd64 2.36.5-2+deb9u2 [170 kB] Get:50 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-common all 2.24.31-2 [2693 kB] Get:51 http://deb.debian.org/debian stretch/main amd64 libavahi-common-data amd64 0.6.32-2 [118 kB] Get:52 http://deb.debian.org/debian stretch/main amd64 libavahi-common3 amd64 0.6.32-2 [52.0 kB] Get:53 http://deb.debian.org/debian stretch/main amd64 libdbus-1-3 amd64 1.10.32-0+deb9u1 [196 kB] Get:54 http://deb.debian.org/debian stretch/main amd64 libavahi-client3 amd64 0.6.32-2 [55.3 kB] Get:55 http://deb.debian.org/debian stretch/main amd64 libgmp10 amd64 2:6.1.2+dfsg-1 [253 kB] Get:56 http://deb.debian.org/debian stretch/main amd64 libnettle6 amd64 3.3-1+b2 [192 kB] Get:57 http://deb.debian.org/debian stretch/main amd64 libhogweed4 amd64 3.3-1+b2 [136 kB] Get:58 http://deb.debian.org/debian stretch/main amd64 libidn11 amd64 1.33-1+deb9u1 [115 kB] Get:59 http://deb.debian.org/debian stretch/main amd64 libp11-kit0 amd64 0.23.3-2 [111 kB] Get:60 http://deb.debian.org/debian stretch/main amd64 libtasn1-6 amd64 4.10-1.1+deb9u1 [50.6 kB] Get:61 http://deb.debian.org/debian stretch/main amd64 libgnutls30 amd64 3.5.8-5+deb9u5 [896 kB] Get:62 http://deb.debian.org/debian stretch/main amd64 libkeyutils1 amd64 1.5.9-9 [12.4 kB] Get:63 http://deb.debian.org/debian stretch/main amd64 libkrb5support0 amd64 1.15-1+deb9u1 [61.9 kB] Get:64 http://deb.debian.org/debian stretch/main amd64 libk5crypto3 amd64 1.15-1+deb9u1 [119 kB] Get:65 http://deb.debian.org/debian stretch/main amd64 libkrb5-3 amd64 1.15-1+deb9u1 [311 kB] Get:66 http://deb.debian.org/debian stretch/main amd64 libgssapi-krb5-2 amd64 1.15-1+deb9u1 [155 kB] Get:67 http://deb.debian.org/debian stretch/main amd64 libcups2 amd64 2.2.1-8+deb9u6 [307 kB] Get:68 http://deb.debian.org/debian stretch/main amd64 libthai-data all 0.1.26-1 [166 kB] Get:69 http://deb.debian.org/debian stretch/main amd64 libdatrie1 amd64 0.2.10-4+b1 [36.4 kB] Get:70 http://deb.debian.org/debian stretch/main amd64 libthai0 amd64 0.1.26-1 [52.1 kB] Get:71 http://deb.debian.org/debian stretch/main amd64 libpango-1.0-0 amd64 1.40.5-1 [320 kB] Get:72 http://deb.debian.org/debian stretch/main amd64 libgraphite2-3 amd64 1.3.10-1 [84.2 kB] Get:73 http://deb.debian.org/debian stretch/main amd64 libharfbuzz0b amd64 1.4.2-1 [671 kB] Get:74 http://deb.debian.org/debian stretch/main amd64 libpangoft2-1.0-0 amd64 1.40.5-1 [205 kB] Get:75 http://deb.debian.org/debian stretch/main amd64 libpangocairo-1.0-0 amd64 1.40.5-1 [193 kB] Get:76 http://deb.debian.org/debian stretch/main amd64 libxcomposite1 amd64 1:0.4.4-2 [16.5 kB] Get:77 http://deb.debian.org/debian stretch/main amd64 libxfixes3 amd64 1:5.0.3-1 [21.9 kB] Get:78 http://deb.debian.org/debian stretch/main amd64 libxcursor1 amd64 1:1.1.14-1+deb9u2 [34.9 kB] Get:79 http://deb.debian.org/debian stretch/main amd64 libxdamage1 amd64 1:1.1.4-2+b3 [14.5 kB] Get:80 http://deb.debian.org/debian stretch/main amd64 libxi6 amd64 2:1.7.9-1 [82.6 kB] Get:81 http://deb.debian.org/debian stretch/main amd64 libxinerama1 amd64 2:1.1.3-1+b3 [16.7 kB] Get:82 http://deb.debian.org/debian stretch/main amd64 libxrandr2 amd64 2:1.5.1-1 [37.5 kB] Get:83 http://deb.debian.org/debian stretch/main amd64 hicolor-icon-theme all 0.15-1 [9550 B] Get:84 http://deb.debian.org/debian stretch/main amd64 gtk-update-icon-cache amd64 3.22.11-1 [76.6 kB] Get:85 http://deb.debian.org/debian stretch/main amd64 libcroco3 amd64 0.6.11-3 [143 kB] Get:86 http://deb.debian.org/debian stretch/main amd64 librsvg2-2 amd64 2.40.16-1+b1 [281 kB] Get:87 http://deb.debian.org/debian stretch/main amd64 librsvg2-common amd64 2.40.16-1+b1 [194 kB] Get:88 http://deb.debian.org/debian stretch/main amd64 gnome-icon-theme all 3.12.0-2 [9890 kB] Get:89 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-0 amd64 2.24.31-2 [1800 kB] Get:90 http://deb.debian.org/debian stretch/main amd64 libglade2-0 amd64 1:2.6.4-2 [81.8 kB] Get:91 http://deb.debian.org/debian stretch/main amd64 lsb-base all 9.20161125 [27.9 kB] Get:92 http://deb.debian.org/debian stretch/main amd64 x11-common all 1:7.7+19 [251 kB] Get:93 http://deb.debian.org/debian stretch/main amd64 libxss1 amd64 1:1.2.2-1 [17.5 kB] Get:94 http://deb.debian.org/debian stretch/main amd64 sgml-base all 1.29 [14.8 kB] Get:95 http://deb.debian.org/debian stretch/main amd64 tzdata all 2020a-0+deb9u1 [278 kB] Get:96 http://deb.debian.org/debian stretch/main amd64 netbase all 5.4 [19.1 kB] Get:97 http://deb.debian.org/debian stretch/main amd64 bzip2 amd64 1.0.6-8.1 [47.5 kB] Get:98 http://deb.debian.org/debian stretch/main amd64 libapparmor1 amd64 2.11.0-3+deb9u2 [78.9 kB] Get:99 http://deb.debian.org/debian stretch/main amd64 dbus amd64 1.10.32-0+deb9u1 [213 kB] Get:100 http://deb.debian.org/debian stretch/main amd64 libmagic-mgc amd64 1:5.30-1+deb9u3 [222 kB] Get:101 http://deb.debian.org/debian stretch/main amd64 libmagic1 amd64 1:5.30-1+deb9u3 [111 kB] Get:102 http://deb.debian.org/debian stretch/main amd64 file amd64 1:5.30-1+deb9u3 [64.2 kB] Get:103 http://deb.debian.org/debian stretch/main amd64 krb5-locales all 1.15-1+deb9u1 [93.8 kB] Get:104 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules-db amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [68.4 kB] Get:105 http://deb.debian.org/debian stretch/main amd64 libsasl2-2 amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [105 kB] Get:106 http://deb.debian.org/debian stretch/main amd64 libldap-common all 2.4.44+dfsg-5+deb9u4 [85.7 kB] Get:107 http://deb.debian.org/debian stretch/main amd64 libldap-2.4-2 amd64 2.4.44+dfsg-5+deb9u4 [219 kB] Get:108 http://deb.debian.org/debian stretch/main amd64 manpages all 4.10-2 [1222 kB] Get:109 http://deb.debian.org/debian stretch/main amd64 xz-utils amd64 5.2.2-1.2+b1 [266 kB] Get:110 http://deb.debian.org/debian stretch/main amd64 binutils amd64 2.28-5 [3770 kB] Get:111 http://deb.debian.org/debian stretch/main amd64 libtcl8.6 amd64 8.6.6+dfsg-1+b1 [985 kB] Get:112 http://deb.debian.org/debian stretch/main amd64 libxft2 amd64 2.3.2-1+b2 [56.5 kB] Get:113 http://deb.debian.org/debian stretch/main amd64 libtk8.6 amd64 8.6.6-1+b1 [754 kB] Get:114 http://deb.debian.org/debian stretch/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-3 [585 kB] Get:115 http://deb.debian.org/debian stretch/main amd64 blt amd64 2.5.3+dfsg-3 [14.6 kB] Get:116 http://deb.debian.org/debian stretch/main amd64 bwa amd64 0.7.15-2+deb9u1 [194 kB] Get:117 http://deb.debian.org/debian stretch/main amd64 openssl amd64 1.1.0l-1~deb9u1 [749 kB] Get:118 http://deb.debian.org/debian stretch/main amd64 ca-certificates all 20200601~deb9u1 [160 kB] Get:119 http://deb.debian.org/debian stretch/main amd64 libisl15 amd64 0.18-1 [564 kB] Get:120 http://deb.debian.org/debian stretch/main amd64 libmpfr4 amd64 3.1.5-1 [556 kB] Get:121 http://deb.debian.org/debian stretch/main amd64 libmpc3 amd64 1.0.3-1+b2 [39.9 kB] Get:122 http://deb.debian.org/debian stretch/main amd64 cpp-6 amd64 6.3.0-18+deb9u1 [6584 kB] Get:123 http://deb.debian.org/debian stretch/main amd64 cpp amd64 4:6.3.0-4 [18.7 kB] Get:124 http://deb.debian.org/debian stretch/main amd64 fonts-lyx all 2.2.2-1 [197 kB] Get:125 http://deb.debian.org/debian stretch/main amd64 libcc1-0 amd64 6.3.0-18+deb9u1 [30.6 kB] Get:126 http://deb.debian.org/debian stretch/main amd64 libgomp1 amd64 6.3.0-18+deb9u1 [73.3 kB] Get:127 http://deb.debian.org/debian stretch/main amd64 libitm1 amd64 6.3.0-18+deb9u1 [27.3 kB] Get:128 http://deb.debian.org/debian stretch/main amd64 libatomic1 amd64 6.3.0-18+deb9u1 [8966 B] Get:129 http://deb.debian.org/debian stretch/main amd64 libasan3 amd64 6.3.0-18+deb9u1 [311 kB] Get:130 http://deb.debian.org/debian stretch/main amd64 liblsan0 amd64 6.3.0-18+deb9u1 [115 kB] Get:131 http://deb.debian.org/debian stretch/main amd64 libtsan0 amd64 6.3.0-18+deb9u1 [257 kB] Get:132 http://deb.debian.org/debian stretch/main amd64 libubsan0 amd64 6.3.0-18+deb9u1 [107 kB] Get:133 http://deb.debian.org/debian stretch/main amd64 libcilkrts5 amd64 6.3.0-18+deb9u1 [40.5 kB] Get:134 http://deb.debian.org/debian stretch/main amd64 libmpx2 amd64 6.3.0-18+deb9u1 [11.2 kB] Get:135 http://deb.debian.org/debian stretch/main amd64 libquadmath0 amd64 6.3.0-18+deb9u1 [131 kB] Get:136 http://deb.debian.org/debian stretch/main amd64 libgcc-6-dev amd64 6.3.0-18+deb9u1 [2296 kB] Get:137 http://deb.debian.org/debian stretch/main amd64 gcc-6 amd64 6.3.0-18+deb9u1 [6900 kB] Get:138 http://deb.debian.org/debian stretch/main amd64 gcc amd64 4:6.3.0-4 [5196 B] Get:139 http://deb.debian.org/debian stretch/main amd64 libc-dev-bin amd64 2.24-11+deb9u4 [259 kB] Get:140 http://deb.debian.org/debian stretch/main amd64 linux-libc-dev amd64 4.9.228-1 [1511 kB] Get:141 http://deb.debian.org/debian stretch/main amd64 libc6-dev amd64 2.24-11+deb9u4 [2364 kB] Get:142 http://deb.debian.org/debian stretch/main amd64 libstdc++-6-dev amd64 6.3.0-18+deb9u1 [1420 kB] Get:143 http://deb.debian.org/debian stretch/main amd64 g++-6 amd64 6.3.0-18+deb9u1 [7094 kB] Get:144 http://deb.debian.org/debian stretch/main amd64 g++ amd64 4:6.3.0-4 [1546 B] Get:145 http://deb.debian.org/debian stretch/main amd64 python-decorator all 4.0.11-1 [13.3 kB] Get:146 http://deb.debian.org/debian stretch/main amd64 libgfortran3 amd64 6.3.0-18+deb9u1 [265 kB] Get:147 http://deb.debian.org/debian stretch/main amd64 libblas-common amd64 3.7.0-2 [14.2 kB] Get:148 http://deb.debian.org/debian stretch/main amd64 libblas3 amd64 3.7.0-2 [155 kB] Get:149 http://deb.debian.org/debian stretch/main amd64 liblapack3 amd64 3.7.0-2 [2141 kB] Get:150 http://deb.debian.org/debian stretch/main amd64 python-numpy amd64 1:1.12.1-3 [1936 kB] Get:151 http://deb.debian.org/debian stretch/main amd64 python-scipy amd64 0.18.1-2 [8933 kB] Get:152 http://deb.debian.org/debian stretch/main amd64 python-reportlab-accel amd64 3.3.0-2+deb9u1 [36.8 kB] Get:153 http://deb.debian.org/debian stretch/main amd64 python-reportlab all 3.3.0-2+deb9u1 [478 kB] Get:154 http://deb.debian.org/debian stretch/main amd64 python-biopython amd64 1.68+dfsg-3 [1201 kB] Get:155 http://deb.debian.org/debian stretch/main amd64 libunistring0 amd64 0.9.6+really0.9.3-0.1 [279 kB] Get:156 http://deb.debian.org/debian stretch/main amd64 libidn2-0 amd64 0.16-1+deb9u1 [60.7 kB] Get:157 http://deb.debian.org/debian stretch/main amd64 libnghttp2-14 amd64 1.18.1-1+deb9u1 [79.2 kB] Get:158 http://deb.debian.org/debian stretch/main amd64 libpsl5 amd64 0.17.0-3 [41.8 kB] Get:159 http://deb.debian.org/debian stretch/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-1+b1 [60.4 kB] Get:160 http://deb.debian.org/debian stretch/main amd64 libssh2-1 amd64 1.7.0-1+deb9u1 [139 kB] Get:161 http://deb.debian.org/debian stretch/main amd64 libcurl3-gnutls amd64 7.52.1-5+deb9u10 [290 kB] Get:162 http://deb.debian.org/debian stretch/main amd64 libhts1 amd64 1.3.2-2 [257 kB] Get:163 http://deb.debian.org/debian stretch/main amd64 python-pysam amd64 0.10.0+ds-2 [1301 kB] Get:164 http://deb.debian.org/debian stretch/main amd64 python-six all 1.10.0-3 [14.4 kB] Get:165 http://deb.debian.org/debian stretch/main amd64 python-dateutil all 2.5.3-2 [51.3 kB] Get:166 http://deb.debian.org/debian stretch/main amd64 python-matplotlib-data all 2.0.0+dfsg1-2 [4414 kB] Get:167 http://deb.debian.org/debian stretch/main amd64 python-pyparsing all 2.1.10+dfsg1-1 [88.5 kB] Get:168 http://deb.debian.org/debian stretch/main amd64 python-tz all 2016.7-0.3 [33.7 kB] Get:169 http://deb.debian.org/debian stretch/main amd64 libjs-jquery all 3.1.1-2+deb9u1 [154 kB] Get:170 http://deb.debian.org/debian stretch/main amd64 libjs-jquery-ui all 1.12.1+dfsg-4 [232 kB] Get:171 http://deb.debian.org/debian stretch/main amd64 python-cycler all 0.10.0-1 [7448 B] Get:172 http://deb.debian.org/debian stretch/main amd64 python-functools32 all 3.2.3.2-3 [11.0 kB] Get:173 http://deb.debian.org/debian stretch/main amd64 python-subprocess32 amd64 3.2.7-2 [28.9 kB] Get:174 http://deb.debian.org/debian stretch/main amd64 python-matplotlib amd64 2.0.0+dfsg1-2 [1598 kB] Get:175 http://deb.debian.org/debian stretch/main amd64 bowtie amd64 1.1.2-6 [1618 kB] Get:176 http://deb.debian.org/debian stretch/main amd64 libtbb2 amd64 4.3~20150611-2 [136 kB] Get:177 http://deb.debian.org/debian stretch/main amd64 bowtie2 amd64 2.3.0-2 [1166 kB] Get:178 http://deb.debian.org/debian stretch/main amd64 seqan-apps amd64 2.3.1+dfsg-4 [11.5 MB] Get:179 http://deb.debian.org/debian stretch/main amd64 gasic amd64 0.0.r19-1 [19.9 kB] Get:180 http://deb.debian.org/debian stretch/main amd64 gsfonts all 1:8.11+urwcyr1.0.7~pre44-4.3 [3126 kB] Get:181 http://deb.debian.org/debian stretch/main amd64 javascript-common all 11 [6120 B] Get:182 http://deb.debian.org/debian stretch/main amd64 libexpat1-dev amd64 2.2.0-2+deb9u3 [134 kB] Get:183 http://deb.debian.org/debian stretch/main amd64 libgail18 amd64 2.24.31-2 [54.1 kB] Get:184 http://deb.debian.org/debian stretch/main amd64 libgail-common amd64 2.24.31-2 [153 kB] Get:185 http://deb.debian.org/debian stretch/main amd64 libglib2.0-data all 2.50.3-2+deb9u2 [2517 kB] Get:186 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-bin amd64 2.24.31-2 [47.1 kB] Get:187 http://deb.debian.org/debian stretch/main amd64 liblcms2-2 amd64 2.8-4+deb9u1 [143 kB] Get:188 http://deb.debian.org/debian stretch/main amd64 libpython2.7 amd64 2.7.13-2+deb9u3 [1071 kB] Get:189 http://deb.debian.org/debian stretch/main amd64 libpython2.7-dev amd64 2.7.13-2+deb9u3 [28.2 MB] Get:190 http://deb.debian.org/debian stretch/main amd64 libpython-dev amd64 2.7.13-2 [20.1 kB] Get:191 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [102 kB] Get:192 http://deb.debian.org/debian stretch/main amd64 libwebp6 amd64 0.5.2-1 [235 kB] Get:193 http://deb.debian.org/debian stretch/main amd64 libwebpdemux2 amd64 0.5.2-1 [73.7 kB] Get:194 http://deb.debian.org/debian stretch/main amd64 libwebpmux2 amd64 0.5.2-1 [83.9 kB] Get:195 http://deb.debian.org/debian stretch/main amd64 manpages-dev all 4.10-2 [2145 kB] Get:196 http://deb.debian.org/debian stretch/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb9u1 [3555 kB] Get:197 http://deb.debian.org/debian stretch/main amd64 ncbi-blast+ amd64 2.6.0-1 [9591 kB] Get:198 http://deb.debian.org/debian stretch/main amd64 python-biopython-doc all 1.68+dfsg-3 [11.8 MB] Get:199 http://deb.debian.org/debian stretch/main amd64 python-cairo amd64 1.8.8-2.2 [42.5 kB] Get:200 http://deb.debian.org/debian stretch/main amd64 python2.7-dev amd64 2.7.13-2+deb9u3 [290 kB] Get:201 http://deb.debian.org/debian stretch/main amd64 python-dev amd64 2.7.13-2 [1126 B] Get:202 http://deb.debian.org/debian stretch/main amd64 python-gobject-2 amd64 2.28.6-13 [289 kB] Get:203 http://deb.debian.org/debian stretch/main amd64 python-gtk2 amd64 2.24.0-5.1 [642 kB] Get:204 http://deb.debian.org/debian stretch/main amd64 python-glade2 amd64 2.24.0-5.1 [43.4 kB] Get:205 http://deb.debian.org/debian stretch/main amd64 python-pil amd64 4.0.0-4+deb9u1 [376 kB] Get:206 http://deb.debian.org/debian stretch/main amd64 python-imaging all 4.0.0-4+deb9u1 [50.5 kB] Get:207 http://deb.debian.org/debian stretch/main amd64 python-renderpm amd64 3.3.0-2+deb9u1 [47.3 kB] Get:208 http://deb.debian.org/debian stretch/main amd64 python-tk amd64 2.7.13-1 [27.4 kB] Get:209 http://deb.debian.org/debian stretch/main amd64 rename all 0.20-4 [12.5 kB] Get:210 http://deb.debian.org/debian stretch/main amd64 xdg-user-dirs amd64 0.15-2+b1 [52.2 kB] Get:211 http://deb.debian.org/debian stretch/main amd64 xml-core all 0.17 [23.2 kB] Get:212 http://deb.debian.org/debian stretch/main amd64 publicsuffix all 20190415.1030-0+deb9u1 [108 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 197 MB in 1s (110 MB/s) Selecting previously unselected package perl-modules-5.24. (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 ... 4411 files and directories currently installed.) Preparing to unpack .../00-perl-modules-5.24_5.24.1-3+deb9u7_all.deb ... Unpacking perl-modules-5.24 (5.24.1-3+deb9u7) ... Selecting previously unselected package libgdbm3:amd64. Preparing to unpack .../01-libgdbm3_1.8.3-14_amd64.deb ... Unpacking libgdbm3:amd64 (1.8.3-14) ... Selecting previously unselected package libperl5.24:amd64. 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Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../08-libexpat1_2.2.0-2+deb9u3_amd64.deb ... Unpacking libexpat1:amd64 (2.2.0-2+deb9u3) ... Selecting previously unselected package libffi6:amd64. Preparing to unpack .../09-libffi6_3.2.1-6_amd64.deb ... Unpacking libffi6:amd64 (3.2.1-6) ... Selecting previously unselected package readline-common. Preparing to unpack .../10-readline-common_7.0-3_all.deb ... Unpacking readline-common (7.0-3) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../11-libreadline7_7.0-3_amd64.deb ... Unpacking libreadline7:amd64 (7.0-3) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../12-libsqlite3-0_3.16.2-5+deb9u1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.16.2-5+deb9u1) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../13-libssl1.1_1.1.0l-1~deb9u1_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.0l-1~deb9u1) ... Selecting previously unselected package libpython2.7-stdlib:amd64. Preparing to unpack .../14-libpython2.7-stdlib_2.7.13-2+deb9u3_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.13-2+deb9u3) ... Selecting previously unselected package python2.7. Preparing to unpack .../15-python2.7_2.7.13-2+deb9u3_amd64.deb ... Unpacking python2.7 (2.7.13-2+deb9u3) ... Selecting previously unselected package libpython-stdlib:amd64. Preparing to unpack .../16-libpython-stdlib_2.7.13-2_amd64.deb ... Unpacking libpython-stdlib:amd64 (2.7.13-2) ... Setting up libpython2.7-minimal:amd64 (2.7.13-2+deb9u3) ... Setting up python2.7-minimal (2.7.13-2+deb9u3) ... Setting up python-minimal (2.7.13-2) ... Selecting previously unselected package python. (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 ... 7061 files and directories currently installed.) Preparing to unpack .../000-python_2.7.13-2_amd64.deb ... Unpacking python (2.7.13-2) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../001-libpng16-16_1.6.28-1+deb9u1_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.28-1+deb9u1) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../002-libfreetype6_2.6.3-3.2+deb9u1_amd64.deb ... Unpacking libfreetype6:amd64 (2.6.3-3.2+deb9u1) ... Selecting previously unselected package ucf. Preparing to unpack .../003-ucf_3.0036_all.deb ... Moving old data out of the way Unpacking ucf (3.0036) ... Selecting previously unselected package ttf-bitstream-vera. Preparing to unpack .../004-ttf-bitstream-vera_1.10-8_all.deb ... Unpacking ttf-bitstream-vera (1.10-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../005-fontconfig-config_2.11.0-6.7_all.deb ... Unpacking fontconfig-config (2.11.0-6.7) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../006-libfontconfig1_2.11.0-6.7+b1_amd64.deb ... Unpacking libfontconfig1:amd64 (2.11.0-6.7+b1) ... Selecting previously unselected package fontconfig. Preparing to unpack .../007-fontconfig_2.11.0-6.7+b1_amd64.deb ... Unpacking fontconfig (2.11.0-6.7+b1) ... Selecting previously unselected package libart-2.0-2:amd64. Preparing to unpack .../008-libart-2.0-2_2.3.21-2_amd64.deb ... Unpacking libart-2.0-2:amd64 (2.3.21-2) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../009-libglib2.0-0_2.50.3-2+deb9u2_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.50.3-2+deb9u2) ... Selecting previously unselected package libatk1.0-data. Preparing to unpack .../010-libatk1.0-data_2.22.0-1_all.deb ... Unpacking libatk1.0-data (2.22.0-1) ... Selecting previously unselected package libatk1.0-0:amd64. Preparing to unpack .../011-libatk1.0-0_2.22.0-1_amd64.deb ... Unpacking libatk1.0-0:amd64 (2.22.0-1) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../012-libpixman-1-0_0.34.0-1_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.34.0-1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../013-libxau6_1%3a1.0.8-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.8-1) ... Selecting previously unselected package libbsd0:amd64. 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Setting up x11-common (1:7.7+19) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 126 added, 0 removed; done. Setting up manpages-dev (4.10-2) ... Setting up hicolor-icon-theme (0.15-1) ... Setting up libc6-dev:amd64 (2.24-11+deb9u4) ... Setting up xdg-user-dirs (0.15-2+b1) ... Setting up libitm1:amd64 (6.3.0-18+deb9u1) ... Setting up libx11-data (2:1.6.4-3+deb9u1) ... Setting up libpython2.7-stdlib:amd64 (2.7.13-2+deb9u3) ... Setting up libxau6:amd64 (1:1.0.8-1) ... Setting up libidn11:amd64 (1.33-1+deb9u1) ... Setting up libdbus-1-3:amd64 (1.10.32-0+deb9u1) ... Setting up libavahi-common-data:amd64 (0.6.32-2) ... Setting up fonts-lyx (2.2.2-1) ... Setting up netbase (5.4) ... Setting up libwebp6:amd64 (0.5.2-1) ... Setting up fontconfig-config (2.11.0-6.7) ... Setting up libgcc-6-dev:amd64 (6.3.0-18+deb9u1) ... Setting up libidn2-0:amd64 (0.16-1+deb9u1) ... Setting up libstdc++-6-dev:amd64 (6.3.0-18+deb9u1) ... Setting up python-matplotlib-data (2.0.0+dfsg1-2) ... Setting up rename (0.20-4) ... update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode Setting up libpsl5:amd64 (0.17.0-3) ... Setting up liblapack3 (3.7.0-2) ... update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Setting up libglib2.0-0:amd64 (2.50.3-2+deb9u2) ... No schema files found: doing nothing. Setting up python2.7 (2.7.13-2+deb9u3) ... Setting up libwebpmux2:amd64 (0.5.2-1) ... Setting up libharfbuzz0b:amd64 (1.4.2-1) ... Setting up libthai0:amd64 (0.1.26-1) ... Setting up file (1:5.30-1+deb9u3) ... Setting up libkrb5support0:amd64 (1.15-1+deb9u1) ... Setting up libhogweed4:amd64 (3.3-1+b2) ... Setting up libcroco3:amd64 (0.6.11-3) ... Setting up libpython-stdlib:amd64 (2.7.13-2) ... Setting up libisl15:amd64 (0.18-1) ... Setting up libatk1.0-0:amd64 (2.22.0-1) ... Setting up libp11-kit0:amd64 (0.23.3-2) ... Setting up libpython2.7:amd64 (2.7.13-2+deb9u3) ... Setting up libwebpdemux2:amd64 (0.5.2-1) ... Setting up libexpat1-dev:amd64 (2.2.0-2+deb9u3) ... Setting up shared-mime-info (1.8-1+deb9u1) ... Setting up libpython2.7-dev:amd64 (2.7.13-2+deb9u3) ... Setting up cpp-6 (6.3.0-18+deb9u1) ... Setting up libavahi-common3:amd64 (0.6.32-2) ... Setting up dbus (1.10.32-0+deb9u1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up python2.7-dev (2.7.13-2+deb9u3) ... Setting up libxcb1:amd64 (1.12-1) ... Setting up python (2.7.13-2) ... Setting up python-pyparsing (2.1.10+dfsg1-1) ... Setting up cpp (4:6.3.0-4) ... Setting up libpython-dev:amd64 (2.7.13-2) ... Setting up libfontconfig1:amd64 (2.11.0-6.7+b1) ... Setting up libk5crypto3:amd64 (1.15-1+deb9u1) ... Setting up python-functools32 (3.2.3.2-3) ... Setting up libxcb-render0:amd64 (1.12-1) ... Setting up bowtie (1.1.2-6) ... Setting up python-reportlab-accel:amd64 (3.3.0-2+deb9u1) ... Setting up python-reportlab (3.3.0-2+deb9u1) ... Setting up python-dev (2.7.13-2) ... Setting up python-tz (2016.7-0.3) ... Setting up libgnutls30:amd64 (3.5.8-5+deb9u5) ... Setting up libx11-6:amd64 (2:1.6.4-3+deb9u1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Setting up python-numpy (1:1.12.1-3) ... Setting up bowtie2 (2.3.0-2) ... Setting up gcc-6 (6.3.0-18+deb9u1) ... Setting up g++-6 (6.3.0-18+deb9u1) ... Setting up python-gobject-2 (2.28.6-13) ... Setting up python-six (1.10.0-3) ... Setting up libldap-2.4-2:amd64 (2.4.44+dfsg-5+deb9u4) ... Setting up python-renderpm:amd64 (3.3.0-2+deb9u1) ... Setting up libxcomposite1:amd64 (1:0.4.4-2) ... Setting up libxcb-shm0:amd64 (1.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libavahi-client3:amd64 (0.6.32-2) ... Setting up libkrb5-3:amd64 (1.15-1+deb9u1) ... Setting up python-decorator (4.0.11-1) ... Setting up python-subprocess32 (3.2.7-2) ... Setting up libxft2:amd64 (2.3.2-1+b2) ... Setting up python-pil:amd64 (4.0.0-4+deb9u1) ... Setting up fontconfig (2.11.0-6.7+b1) ... Regenerating fonts cache... done. Setting up python-biopython (1.68+dfsg-3) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up libxfixes3:amd64 (1:5.0.3-1) ... Setting up python-scipy (0.18.1-2) ... Setting up libxss1:amd64 (1:1.2.2-1) ... Setting up libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... Setting up ncbi-blast+ (2.6.0-1) ... Setting up gcc (4:6.3.0-4) ... Setting up python-cycler (0.10.0-1) ... Setting up libgssapi-krb5-2:amd64 (1.15-1+deb9u1) ... Setting up python-dateutil (2.5.3-2) ... Setting up python-imaging (4.0.0-4+deb9u1) ... Setting up gtk-update-icon-cache (3.22.11-1) ... Setting up libxcursor1:amd64 (1:1.1.14-1+deb9u2) ... Setting up libpango-1.0-0:amd64 (1.40.5-1) ... Setting up g++ (4:6.3.0-4) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up libxrandr2:amd64 (2:1.5.1-1) ... Setting up libcups2:amd64 (2.2.1-8+deb9u6) ... Setting up libxi6:amd64 (2:1.7.9-1) ... Setting up libcairo2:amd64 (1.14.8-1) ... Setting up libxinerama1:amd64 (2:1.1.3-1+b3) ... Setting up libxdamage1:amd64 (1:1.1.4-2+b3) ... Setting up libcurl3-gnutls:amd64 (7.52.1-5+deb9u10) ... Setting up libtk8.6:amd64 (8.6.6-1+b1) ... Setting up libpangoft2-1.0-0:amd64 (1.40.5-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-3) ... Setting up python-cairo (1.8.8-2.2) ... Setting up blt (2.5.3+dfsg-3) ... Setting up libhts1:amd64 (1.3.2-2) ... Setting up python-pysam (0.10.0+ds-2) ... Setting up libpangocairo-1.0-0:amd64 (1.40.5-1) ... Setting up python-tk (2.7.13-1) ... Setting up librsvg2-2:amd64 (2.40.16-1+b1) ... Setting up librsvg2-common:amd64 (2.40.16-1+b1) ... Setting up gnome-icon-theme (3.12.0-2) ... update-alternatives: using /usr/share/icons/gnome/scalable/places/debian-swirl.svg to provide /usr/share/icons/gnome/scalable/places/start-here.svg (start-here.svg) in auto mode Setting up libgtk2.0-0:amd64 (2.24.31-2) ... Setting up libgail18:amd64 (2.24.31-2) ... Setting up python-gtk2 (2.24.0-5.1) ... Setting up python-matplotlib (2.0.0+dfsg1-2) ... Setting up libgail-common:amd64 (2.24.31-2) ... Setting up libglade2-0:amd64 (1:2.6.4-2) ... Setting up python-glade2 (2.24.0-5.1) ... Setting up gasic (0.0.r19-1) ... Setting up libgtk2.0-bin (2.24.31-2) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Processing triggers for sgml-base (1.29) ... Processing triggers for ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... 0m41.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-y', 'install', 'gasic'] 0m41.5s INFO: Running scripts post_install 0m41.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_install_exceptions'] 0m41.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_install_exceptions'] 0m41.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 0m42.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 0m42.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpfq5o9w1n to buster 0m42.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m42.6s INFO: Running scripts pre_distupgrade 0m42.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m42.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m42.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_exceptions'] 0m42.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_exceptions'] 0m42.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m42.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m42.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m42.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m42.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m42.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m42.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', 'update'] 0m45.8s DUMP: Get:1 http://deb.debian.org/debian buster InRelease [122 kB] Get:2 http://deb.debian.org/debian buster/main amd64 Packages [7909 kB] Get:3 http://deb.debian.org/debian buster/main Translation-en [5969 kB] Fetched 14.0 MB in 2s (5844 kB/s) Reading package lists... 0m45.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', 'update'] 0m45.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-y', 'upgrade'] 1m5.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libart-2.0-2 Use 'sudo apt autoremove' to remove it. The following packages have been kept back: apt bash binutils bowtie ca-certificates coreutils cpp dash dpkg e2fslibs e2fsprogs g++ gcc gpgv gtk-update-icon-cache libapt-pkg5.0 libatk1.0-0 libatk1.0-data libatomic1 libblas3 libblkid1 libbsd0 libc-bin libc-dev-bin libc6 libc6-dev libcc1-0 libcilkrts5 libcomerr2 libcups2 libcurl3-gnutls libexpat1 libexpat1-dev libfdisk1 libgcc1 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libglib2.0-0 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn2-0 libitm1 libk5crypto3 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 liblsan0 libmount1 libmpc3 libmpx2 libncursesw5 libp11-kit0 libpam-modules libpam-modules-bin libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpsl5 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++6 libsystemd0 libtbb2 libtiff5 libtinfo5 libtsan0 libubsan0 libudev1 libuuid1 libxml2 login mount ncbi-blast+ ncurses-base ncurses-bin openssl perl perl-base python python-biopython python-biopython-doc python-dev python-glade2 python-gtk2 python-matplotlib python-minimal python-numpy python-pil python-pysam python-scipy python2.7 python2.7-dev python2.7-minimal rename seqan-apps util-linux The following packages will be upgraded: adduser base-files base-passwd blt bowtie2 bsdutils bwa bzip2 dbus debconf debian-archive-keyring debianutils diffutils file findutils fontconfig fontconfig-config fonts-lyx gasic gnome-icon-theme grep gsfonts gzip hicolor-icon-theme hostname init-system-helpers krb5-locales libacl1 libapparmor1 libart-2.0-2 libattr1 libaudit-common libaudit1 libavahi-client3 libavahi-common-data libavahi-common3 libbz2-1.0 libcairo2 libcap-ng0 libcroco3 libdatrie1 libdb5.3 libdbus-1-3 libdebconfclient0 libffi6 libfontconfig1 libfreetype6 libgail-common libgail18 libgcrypt20 libglade2-0 libglib2.0-data libgmp10 libgraphite2-3 libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libharfbuzz0b libhogweed4 libidn11 libjpeg62-turbo libjs-jquery libjs-jquery-ui libkeyutils1 liblcms2-2 libldap-common liblz4-1 liblzma5 libmagic-mgc libmagic1 libnettle6 libnghttp2-14 libpam-runtime libpam0g libpcre3 libpixman-1-0 libpng16-16 librsvg2-2 librsvg2-common librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libselinux1 libsemanage-common libsemanage1 libsepol1 libssh2-1 libtasn1-6 libtcl8.6 libthai-data libthai0 libtk8.6 libwebp6 libwebpdemux2 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxcursor1 libxdamage1 libxft2 libxinerama1 libxss1 linux-libc-dev lsb-base manpages manpages-dev mime-support multiarch-support ncbi-data netbase passwd publicsuffix python-cairo python-dateutil python-decorator python-gobject-2 python-matplotlib-data python-pyparsing python-renderpm python-reportlab python-reportlab-accel python-six python-subprocess32 python-tk python-tz readline-common sed sensible-utils shared-mime-info sysvinit-utils tar tk8.6-blt2.5 tzdata ucf xdg-user-dirs xml-core xz-utils zlib1g 142 upgraded, 0 newly installed, 0 to remove and 109 not upgraded. Need to get 57.9 MB of archives. After this operation, 8230 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 base-files amd64 10.3+deb10u13 [69.9 kB] Get:2 http://deb.debian.org/debian buster/main amd64 bsdutils amd64 1:2.33.1-0.1 [121 kB] Get:3 http://deb.debian.org/debian buster/main amd64 debianutils amd64 4.8.6.1 [100 kB] Get:4 http://deb.debian.org/debian buster/main amd64 diffutils amd64 1:3.7-3 [371 kB] Get:5 http://deb.debian.org/debian buster/main amd64 findutils amd64 4.6.0+git+20190209-2 [684 kB] Get:6 http://deb.debian.org/debian buster/main amd64 grep amd64 3.3-1 [373 kB] Get:7 http://deb.debian.org/debian buster/main amd64 gzip amd64 1.9-3+deb10u1 [128 kB] Get:8 http://deb.debian.org/debian buster/main amd64 hostname amd64 3.21 [14.8 kB] Get:9 http://deb.debian.org/debian buster/main amd64 sed amd64 4.7-1 [310 kB] Get:10 http://deb.debian.org/debian buster/main amd64 tar amd64 1.30+dfsg-6 [780 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libdebconfclient0 amd64 0.249 [49.1 kB] Get:12 http://deb.debian.org/debian buster/main amd64 base-passwd amd64 3.5.46 [56.7 kB] Get:13 http://deb.debian.org/debian buster/main amd64 init-system-helpers all 1.56+nmu1 [46.8 kB] Get:14 http://deb.debian.org/debian buster/main amd64 sysvinit-utils amd64 2.93-8 [78.4 kB] Get:15 http://deb.debian.org/debian buster/main amd64 debconf all 1.5.71+deb10u1 [145 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libpam-runtime all 1.3.1-5 [211 kB] Get:17 http://deb.debian.org/debian buster/main amd64 libaudit-common all 1:2.8.4-3 [22.4 kB] Get:18 http://deb.debian.org/debian buster/main amd64 libcap-ng0 amd64 0.7.9-2 [14.3 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libaudit1 amd64 1:2.8.4-3 [57.3 kB] Get:20 http://deb.debian.org/debian buster/main amd64 libpam0g amd64 1.3.1-5 [126 kB] Get:21 http://deb.debian.org/debian buster/main amd64 libpcre3 amd64 2:8.39-12 [341 kB] Get:22 http://deb.debian.org/debian buster/main amd64 libselinux1 amd64 2.8-1+b1 [86.9 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libsepol1 amd64 2.8-1 [263 kB] Get:24 http://deb.debian.org/debian buster/main amd64 libsemanage-common all 2.8-2 [17.7 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libsemanage1 amd64 2.8-2 [96.5 kB] Get:26 http://deb.debian.org/debian buster/main amd64 bzip2 amd64 1.0.6-9.2~deb10u1 [48.4 kB] Get:27 http://deb.debian.org/debian buster/main amd64 libbz2-1.0 amd64 1.0.6-9.2~deb10u1 [45.3 kB] Get:28 http://deb.debian.org/debian buster/main amd64 passwd amd64 1:4.5-1.1 [1005 kB] Get:29 http://deb.debian.org/debian buster/main amd64 adduser all 3.118 [240 kB] Get:30 http://deb.debian.org/debian buster/main amd64 debian-archive-keyring all 2019.1+deb10u1 [93.5 kB] Get:31 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libattr1 amd64 1:2.4.48-4 [21.3 kB] Get:33 http://deb.debian.org/debian buster/main amd64 libacl1 amd64 2.2.53-4 [30.4 kB] Get:34 http://deb.debian.org/debian buster/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.5 [683 kB] Get:35 http://deb.debian.org/debian buster/main amd64 libgcrypt20 amd64 1.8.4-5+deb10u1 [556 kB] Get:36 http://deb.debian.org/debian buster/main amd64 liblz4-1 amd64 1.8.3-1+deb10u1 [53.3 kB] Get:37 http://deb.debian.org/debian buster/main amd64 liblzma5 amd64 5.2.4-1+deb10u1 [153 kB] Get:38 http://deb.debian.org/debian buster/main amd64 zlib1g amd64 1:1.2.11.dfsg-1+deb10u1 [90.8 kB] Get:39 http://deb.debian.org/debian buster/main amd64 tzdata all 2021a-0+deb10u6 [265 kB] Get:40 http://deb.debian.org/debian buster/main amd64 netbase all 5.6 [19.4 kB] Get:41 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get:42 http://deb.debian.org/debian buster/main amd64 dbus amd64 1.12.20-0+deb10u1 [236 kB] Get:43 http://deb.debian.org/debian buster/main amd64 libdbus-1-3 amd64 1.12.20-0+deb10u1 [215 kB] Get:44 http://deb.debian.org/debian buster/main amd64 libapparmor1 amd64 2.13.2-10 [94.7 kB] Get:45 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get:46 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get:47 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get:48 http://deb.debian.org/debian buster/main amd64 krb5-locales all 1.17-3+deb10u4 [95.6 kB] Get:49 http://deb.debian.org/debian buster/main amd64 manpages-dev all 4.16-2 [2232 kB] Get:50 http://deb.debian.org/debian buster/main amd64 manpages all 4.16-2 [1295 kB] Get:51 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get:52 http://deb.debian.org/debian buster/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:53 http://deb.debian.org/debian buster/main amd64 xz-utils amd64 5.2.4-1+deb10u1 [183 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libtcl8.6 amd64 8.6.9+dfsg-2 [1005 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libpng16-16 amd64 1.6.36-6 [292 kB] Get:56 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u3 [380 kB] Get:57 http://deb.debian.org/debian buster/main amd64 libfontconfig1 amd64 2.13.1-2 [346 kB] Get:58 http://deb.debian.org/debian buster/main amd64 fontconfig-config all 2.13.1-2 [280 kB] Get:59 http://deb.debian.org/debian buster/main amd64 libx11-data all 2:1.6.7-1+deb10u2 [299 kB] Get:60 http://deb.debian.org/debian buster/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9 kB] Get:61 http://deb.debian.org/debian buster/main amd64 libxcb1 amd64 1.13.1-2 [137 kB] Get:62 http://deb.debian.org/debian buster/main amd64 libx11-6 amd64 2:1.6.7-1+deb10u2 [757 kB] Get:63 http://deb.debian.org/debian buster/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get:64 http://deb.debian.org/debian buster/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:65 http://deb.debian.org/debian buster/main amd64 libtk8.6 amd64 8.6.9-2 [768 kB] Get:66 http://deb.debian.org/debian buster/main amd64 blt amd64 2.5.3+dfsg-4 [14.8 kB] Get:67 http://deb.debian.org/debian buster/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4 [587 kB] Get:68 http://deb.debian.org/debian buster/main amd64 bowtie2 amd64 2.3.4.3-1 [1188 kB] Get:69 http://deb.debian.org/debian buster/main amd64 bwa amd64 0.7.17-3 [195 kB] Get:70 http://deb.debian.org/debian buster/main amd64 fontconfig amd64 2.13.1-2 [405 kB] Get:71 http://deb.debian.org/debian buster/main amd64 fonts-lyx all 2.3.2-1 [199 kB] Get:72 http://deb.debian.org/debian buster/main amd64 gasic amd64 0.0.r19-4 [20.3 kB] Get:73 http://deb.debian.org/debian buster/main amd64 hicolor-icon-theme all 0.17-2 [11.4 kB] Get:74 http://deb.debian.org/debian buster/main amd64 libpixman-1-0 amd64 0.36.0-1 [537 kB] Get:75 http://deb.debian.org/debian buster/main amd64 libxcb-render0 amd64 1.13.1-2 [109 kB] Get:76 http://deb.debian.org/debian buster/main amd64 libxcb-shm0 amd64 1.13.1-2 [99.2 kB] Get:77 http://deb.debian.org/debian buster/main amd64 libcairo2 amd64 1.16.0-4+deb10u1 [688 kB] Get:78 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get:79 http://deb.debian.org/debian buster/main amd64 librsvg2-common amd64 2.44.10-2.1+deb10u3 [23.6 kB] Get:80 http://deb.debian.org/debian buster/main amd64 librsvg2-2 amd64 2.44.10-2.1+deb10u3 [1258 kB] Get:81 http://deb.debian.org/debian buster/main amd64 gnome-icon-theme all 3.12.0-3 [9869 kB] Get:82 http://deb.debian.org/debian buster/main amd64 gsfonts all 1:8.11+urwcyr1.0.7~pre44-4.4 [3125 kB] Get:83 http://deb.debian.org/debian buster/main amd64 libart-2.0-2 amd64 2.3.21-4 [66.8 kB] Get:84 http://deb.debian.org/debian buster/main amd64 libavahi-common-data amd64 0.7-4+deb10u1 [122 kB] Get:85 http://deb.debian.org/debian buster/main amd64 libavahi-common3 amd64 0.7-4+deb10u1 [54.4 kB] Get:86 http://deb.debian.org/debian buster/main amd64 libavahi-client3 amd64 0.7-4+deb10u1 [58.2 kB] Get:87 http://deb.debian.org/debian buster/main amd64 libdatrie1 amd64 0.2.12-2 [39.3 kB] Get:88 http://deb.debian.org/debian buster/main amd64 libffi6 amd64 3.2.1-9 [20.8 kB] Get:89 http://deb.debian.org/debian buster/main amd64 libgtk2.0-common all 2.24.32-3 [2698 kB] Get:90 http://deb.debian.org/debian buster/main amd64 libgtk2.0-bin amd64 2.24.32-3 [48.5 kB] Get:91 http://deb.debian.org/debian buster/main amd64 libxcursor1 amd64 1:1.1.15-2 [36.6 kB] Get:92 http://deb.debian.org/debian buster/main amd64 libxdamage1 amd64 1:1.1.4-3+b3 [14.9 kB] Get:93 http://deb.debian.org/debian buster/main amd64 libxinerama1 amd64 2:1.1.4-2 [17.7 kB] Get:94 http://deb.debian.org/debian buster/main amd64 shared-mime-info amd64 1.10-1 [766 kB] Get:95 http://deb.debian.org/debian buster/main amd64 libgail-common amd64 2.24.32-3 [156 kB] Get:96 http://deb.debian.org/debian buster/main amd64 libgail18 amd64 2.24.32-3 [55.5 kB] Get:97 http://deb.debian.org/debian buster/main amd64 libgtk2.0-0 amd64 2.24.32-3 [1809 kB] Get:98 http://deb.debian.org/debian buster/main amd64 libglade2-0 amd64 1:2.6.4-2+b1 [82.2 kB] Get:99 http://deb.debian.org/debian buster/main amd64 libglib2.0-data all 2.58.3-2+deb10u3 [1111 kB] Get:100 http://deb.debian.org/debian buster/main amd64 libgmp10 amd64 2:6.1.2+dfsg-4+deb10u1 [251 kB] Get:101 http://deb.debian.org/debian buster/main amd64 libgraphite2-3 amd64 1.3.13-7 [80.7 kB] Get:102 http://deb.debian.org/debian buster/main amd64 libharfbuzz0b amd64 2.3.1-1 [1187 kB] Get:103 http://deb.debian.org/debian buster/main amd64 libhogweed4 amd64 3.4.1-1+deb10u1 [141 kB] Get:104 http://deb.debian.org/debian buster/main amd64 libnettle6 amd64 3.4.1-1+deb10u1 [215 kB] Get:105 http://deb.debian.org/debian buster/main amd64 libidn11 amd64 1.33-2.2 [116 kB] Get:106 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get:107 http://deb.debian.org/debian buster/main amd64 libjs-jquery all 3.3.1~dfsg-3+deb10u1 [332 kB] Get:108 http://deb.debian.org/debian buster/main amd64 libjs-jquery-ui all 1.12.1+dfsg-5 [232 kB] Get:109 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:110 http://deb.debian.org/debian buster/main amd64 liblcms2-2 amd64 2.9-3 [145 kB] Get:111 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u7 [90.1 kB] Get:112 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get:113 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get:114 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u2 [69.2 kB] Get:115 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u2 [106 kB] Get:116 http://deb.debian.org/debian buster/main amd64 libsasl2-modules amd64 2.1.27+dfsg-1+deb10u2 [104 kB] Get:117 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:118 http://deb.debian.org/debian buster/main amd64 libtasn1-6 amd64 4.13-3 [51.9 kB] Get:119 http://deb.debian.org/debian buster/main amd64 libthai-data all 0.1.28-2 [170 kB] Get:120 http://deb.debian.org/debian buster/main amd64 libthai0 amd64 0.1.28-2 [54.1 kB] Get:121 http://deb.debian.org/debian buster/main amd64 libwebp6 amd64 0.6.1-2+deb10u1 [261 kB] Get:122 http://deb.debian.org/debian buster/main amd64 libwebpdemux2 amd64 0.6.1-2+deb10u1 [87.6 kB] Get:123 http://deb.debian.org/debian buster/main amd64 linux-libc-dev amd64 4.19.249-2 [1530 kB] Get:124 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get:125 http://deb.debian.org/debian buster/main amd64 multiarch-support amd64 2.28-10+deb10u1 [216 kB] Get:126 http://deb.debian.org/debian buster/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb10u2 [3552 kB] Get:127 http://deb.debian.org/debian buster/main amd64 publicsuffix all 20220811.1734-0+deb10u1 [127 kB] Get:128 http://deb.debian.org/debian buster/main amd64 python-cairo amd64 1.16.2-1+b1 [58.4 kB] Get:129 http://deb.debian.org/debian buster/main amd64 python-six all 1.12.0-1 [15.7 kB] Get:130 http://deb.debian.org/debian buster/main amd64 python-dateutil all 2.7.3-3 [76.8 kB] Get:131 http://deb.debian.org/debian buster/main amd64 python-decorator all 4.3.0-1.1 [14.4 kB] Get:132 http://deb.debian.org/debian buster/main amd64 python-gobject-2 amd64 2.28.6-13+b1 [288 kB] Get:133 http://deb.debian.org/debian buster/main amd64 python-matplotlib-data all 3.0.2-2 [4138 kB] Get:134 http://deb.debian.org/debian buster/main amd64 python-pyparsing all 2.2.0+dfsg1-2 [89.5 kB] Get:135 http://deb.debian.org/debian buster/main amd64 python-renderpm amd64 3.5.13-1+deb10u1 [76.6 kB] Get:136 http://deb.debian.org/debian buster/main amd64 python-reportlab-accel amd64 3.5.13-1+deb10u1 [39.8 kB] Get:137 http://deb.debian.org/debian buster/main amd64 python-reportlab all 3.5.13-1+deb10u1 [545 kB] Get:138 http://deb.debian.org/debian buster/main amd64 python-subprocess32 amd64 3.5.3-1 [29.9 kB] Get:139 http://deb.debian.org/debian buster/main amd64 python-tk amd64 2.7.16-2 [27.5 kB] Get:140 http://deb.debian.org/debian buster/main amd64 python-tz all 2019.1-1 [33.6 kB] Get:141 http://deb.debian.org/debian buster/main amd64 xdg-user-dirs amd64 0.17-2 [53.8 kB] Get:142 http://deb.debian.org/debian buster/main amd64 xml-core all 0.18+nmu1 [23.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 57.9 MB in 0s (109 MB/s) (Reading database ... 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(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 ... 29617 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.8.4-3_amd64.deb ... Unpacking libaudit1:amd64 (1:2.8.4-3) over (1:2.6.7-2) ... Setting up libaudit1:amd64 (1:2.8.4-3) ... (Reading database ... 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Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-security-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-stable.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-security-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-stable.gpg ... (Reading database ... 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Current default time zone: 'Etc/UTC' Local time is now: Wed Nov 30 17:34:29 UTC 2022. Universal Time is now: Wed Nov 30 17:34:29 UTC 2022. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up python-tz (2019.1-1) ... Setting up linux-libc-dev:amd64 (4.19.249-2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up libdatrie1:amd64 (0.2.12-2) ... Processing triggers for sgml-base (1.29) ... Setting up ucf (3.0038+nmu1) ... Setting up bowtie2 (2.3.4.3-1) ... Setting up libfreetype6:amd64 (2.9.1-3+deb10u3) ... Setting up libtasn1-6:amd64 (4.13-3) ... Setting up libmagic-mgc (1:5.35-4+deb10u2) ... Setting up bzip2 (1.0.6-9.2~deb10u1) ... Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... Setting up lsb-base (10.2019051400) ... Setting up libgraphite2-3:amd64 (1.3.13-7) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up libgmp10:amd64 (2:6.1.2+dfsg-4+deb10u1) ... Setting up ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Setting up libpixman-1-0:amd64 (0.36.0-1) ... Setting up python-six (1.12.0-1) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up libglib2.0-data (2.58.3-2+deb10u3) ... Setting up krb5-locales (1.17-3+deb10u4) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Setting up publicsuffix (20220811.1734-0+deb10u1) ... Setting up libapparmor1:amd64 (2.13.2-10) ... Setting up xz-utils (5.2.4-1+deb10u1) ... Setting up libjs-jquery-ui (1.12.1+dfsg-5) ... Setting up python-renderpm:amd64 (3.5.13-1+deb10u1) ... Setting up shared-mime-info (1.10-1) ... Setting up libffi6:amd64 (3.2.1-9) ... Setting up python-decorator (4.3.0-1.1) ... Setting up libtcl8.6:amd64 (8.6.9+dfsg-2) ... Setting up libthai-data (0.1.28-2) ... Setting up xml-core (0.18+nmu1) ... Setting up python-subprocess32 (3.5.3-1) ... Setting up libkeyutils1:amd64 (1.6-6) ... Setting up libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up manpages-dev (4.16-2) ... Setting up hicolor-icon-theme (0.17-2) ... Setting up xdg-user-dirs (0.17-2) ... Removing obsolete conffile /etc/X11/Xsession.d/60xdg-user-dirs-update ... Setting up libx11-data (2:1.6.7-1+deb10u2) ... Setting up libxau6:amd64 (1:1.0.8-1+b2) ... Setting up libidn11:amd64 (1.33-2.2) ... Setting up libdbus-1-3:amd64 (1.12.20-0+deb10u1) ... Setting up libavahi-common-data:amd64 (0.7-4+deb10u1) ... Setting up gasic (0.0.r19-4) ... Setting up fonts-lyx (2.3.2-1) ... Setting up netbase (5.6) ... Installing new version of config file /etc/services ... Setting up libwebp6:amd64 (0.6.1-2+deb10u1) ... Setting up python-pyparsing (2.2.0+dfsg1-2) ... Setting up fontconfig-config (2.13.1-2) ... Installing new version of config file /etc/fonts/fonts.conf ... Setting up python-matplotlib-data (3.0.2-2) ... Installing new version of config file /etc/matplotlibrc ... Setting up libharfbuzz0b:amd64 (2.3.1-1) ... Setting up libthai0:amd64 (0.1.28-2) ... Setting up file (1:5.35-4+deb10u2) ... Setting up libhogweed4:amd64 (3.4.1-1+deb10u1) ... Setting up python-dateutil (2.7.3-3) ... Setting up python-gobject-2 (2.28.6-13+b1) ... Setting up libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Setting up libavahi-common3:amd64 (0.7-4+deb10u1) ... Setting up dbus (1.12.20-0+deb10u1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libfontconfig1:amd64 (2.13.1-2) ... Setting up libxcb-render0:amd64 (1.13.1-2) ... Setting up libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libxcursor1:amd64 (1:1.1.15-2) ... Setting up libxcb-shm0:amd64 (1.13.1-2) ... Setting up libavahi-client3:amd64 (0.7-4+deb10u1) ... Setting up libxft2:amd64 (2.3.2-2) ... Setting up fontconfig (2.13.1-2) ... Regenerating fonts cache... done. Setting up libcairo2:amd64 (1.16.0-4+deb10u1) ... Setting up libxinerama1:amd64 (2:1.1.4-2) ... Setting up libxdamage1:amd64 (1:1.1.4-3+b3) ... Setting up librsvg2-2:amd64 (2.44.10-2.1+deb10u3) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Processing triggers for libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... Setting up librsvg2-common:amd64 (2.44.10-2.1+deb10u3) ... Setting up python-cairo:amd64 (1.16.2-1+b1) ... Setting up libtk8.6:amd64 (8.6.9-2) ... Setting up gnome-icon-theme (3.12.0-3) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4) ... Setting up blt (2.5.3+dfsg-4) ... Setting up libgtk2.0-0:amd64 (2.24.32-3) ... Setting up libgail18:amd64 (2.24.32-3) ... Setting up libgail-common:amd64 (2.24.32-3) ... Setting up libglade2-0:amd64 (1:2.6.4-2+b1) ... Setting up python-tk (2.7.16-2) ... Setting up libgtk2.0-bin (2.24.32-3) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Processing triggers for sgml-base (1.29) ... Processing triggers for libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... 1m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-y', 'upgrade'] 1m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-yf', 'dist-upgrade'] 1m42.4s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: dbus gnome-icon-theme gtk-update-icon-cache hicolor-icon-theme libapparmor1 libart-2.0-2 libatk1.0-0 libatk1.0-data libavahi-client3 libavahi-common-data libavahi-common3 libblas-common libcups2 libdbus-1-3 libgail-common libgail18 libgdbm3 libgfortran3 libglade2-0 libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libhts1 libicu57 libidn11 libperl5.24 libunistring0 libwebpmux2 libxcomposite1 libxcursor1 libxdamage1 libxfixes3 libxi6 libxinerama1 libxrandr2 python-cairo python-functools32 python-glade2 python-gtk2 python-imaging python-matplotlib-data rename sgml-base xml-core Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: binutils-common binutils-x86-64-linux-gnu cpp-8 e2fsprogs-l10n fdisk g++-8 gcc-7-base gcc-8 gcc-8-base libasan5 libbinutils libcom-err2 libdeflate0 libext2fs2 libfribidi0 libgcc-8-dev libgdbm-compat4 libgdbm6 libgdk-pixbuf2.0-bin libgfortran5 libgpg-error-l10n libgpm2 libhts2 libicu63 libimagequant0 libisl19 liblmdb0 libmbedcrypto3 libmbedtls12 libmbedx509-0 libmpfr6 libncursesw6 libperl5.28 libpython2-dev libpython2-stdlib libseccomp2 libstdc++-8-dev libtinfo6 libubsan1 libunistring2 libwebpmux3 libzstd1 perl-modules-5.28 python-backports.functools-lru-cache python-kiwisolver python-matplotlib2-data python-olefile python-pkg-resources python2 python2-dev python2-minimal The following packages will be upgraded: apt bash binutils bowtie ca-certificates coreutils cpp dash dpkg e2fslibs e2fsprogs g++ gcc gpgv gtk-update-icon-cache libapt-pkg5.0 libatk1.0-0 libatk1.0-data libatomic1 libblas3 libblkid1 libbsd0 libc-bin libc-dev-bin libc6 libc6-dev libcc1-0 libcilkrts5 libcomerr2 libcups2 libcurl3-gnutls libexpat1 libexpat1-dev libfdisk1 libgcc1 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libglib2.0-0 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn2-0 libitm1 libk5crypto3 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 liblsan0 libmount1 libmpc3 libmpx2 libncursesw5 libp11-kit0 libpam-modules libpam-modules-bin libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpsl5 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++6 libsystemd0 libtbb2 libtiff5 libtinfo5 libtsan0 libubsan0 libudev1 libuuid1 libxml2 login mount ncbi-blast+ ncurses-base ncurses-bin openssl perl perl-base python python-biopython python-biopython-doc python-dev python-glade2 python-gtk2 python-matplotlib python-minimal python-numpy python-pil python-pysam python-scipy python2.7 python2.7-dev python2.7-minimal rename seqan-apps util-linux 109 upgraded, 51 newly installed, 0 to remove and 0 not upgraded. Need to get 196 MB of archives. After this operation, 271 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 libc6-dev amd64 2.28-10+deb10u1 [2692 kB] Get:2 http://deb.debian.org/debian buster/main amd64 libc-dev-bin amd64 2.28-10+deb10u1 [276 kB] Get:3 http://deb.debian.org/debian buster/main amd64 libc6 amd64 2.28-10+deb10u1 [2863 kB] Get:4 http://deb.debian.org/debian buster/main amd64 libc-bin amd64 2.28-10+deb10u1 [795 kB] Get:5 http://deb.debian.org/debian buster/main amd64 gcc-8-base amd64 8.3.0-6 [191 kB] Get:6 http://deb.debian.org/debian buster/main amd64 libgcc1 amd64 1:8.3.0-6 [40.6 kB] Get:7 http://deb.debian.org/debian buster/main amd64 libtinfo6 amd64 6.1+20181013-2+deb10u2 [325 kB] Get:8 http://deb.debian.org/debian buster/main amd64 bash amd64 5.0-4 [1378 kB] Get:9 http://deb.debian.org/debian buster/main amd64 coreutils amd64 8.30-3 [2708 kB] Get:10 http://deb.debian.org/debian buster/main amd64 libzstd1 amd64 1.3.8+dfsg-3+deb10u2 [237 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libunistring2 amd64 0.9.10-1 [381 kB] Get:12 http://deb.debian.org/debian buster/main amd64 libidn2-0 amd64 2.0.5-1+deb10u1 [76.7 kB] Get:13 http://deb.debian.org/debian buster/main amd64 libp11-kit0 amd64 0.23.15-2+deb10u1 [316 kB] Get:14 http://deb.debian.org/debian buster/main amd64 libgnutls30 amd64 3.6.7-4+deb10u8 [1126 kB] Get:15 http://deb.debian.org/debian buster/main amd64 libseccomp2 amd64 2.3.3-4 [41.4 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libgpg-error0 amd64 1.35-1 [71.1 kB] Get:17 http://deb.debian.org/debian buster/main amd64 gpgv amd64 2.2.12-1+deb10u2 [584 kB] Get:18 http://deb.debian.org/debian buster/main amd64 libstdc++6 amd64 8.3.0-6 [395 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libapt-pkg5.0 amd64 1.8.2.3 [967 kB] Get:20 http://deb.debian.org/debian buster/main amd64 apt amd64 1.8.2.3 [1418 kB] Get:21 http://deb.debian.org/debian buster/main amd64 libsystemd0 amd64 241-7~deb10u8 [331 kB] Get:22 http://deb.debian.org/debian buster/main amd64 libudev1 amd64 241-7~deb10u8 [151 kB] Get:23 http://deb.debian.org/debian buster/main amd64 dpkg amd64 1.19.8 [2210 kB] Get:24 http://deb.debian.org/debian buster/main amd64 dash amd64 0.5.10.2-5 [112 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libcom-err2 amd64 1.44.5-1+deb10u3 [68.4 kB] Get:26 http://deb.debian.org/debian buster/main amd64 libcomerr2 amd64 1.44.5-1+deb10u3 [64.2 kB] Get:27 http://deb.debian.org/debian buster/main amd64 libext2fs2 amd64 1.44.5-1+deb10u3 [221 kB] Get:28 http://deb.debian.org/debian buster/main amd64 e2fslibs amd64 1.44.5-1+deb10u3 [64.2 kB] Get:29 http://deb.debian.org/debian buster/main amd64 e2fsprogs amd64 1.44.5-1+deb10u3 [576 kB] Get:30 http://deb.debian.org/debian buster/main amd64 libuuid1 amd64 2.33.1-0.1 [78.3 kB] Get:31 http://deb.debian.org/debian buster/main amd64 libblkid1 amd64 2.33.1-0.1 [195 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libsmartcols1 amd64 2.33.1-0.1 [150 kB] Get:33 http://deb.debian.org/debian buster/main amd64 libfdisk1 amd64 2.33.1-0.1 [234 kB] Get:34 http://deb.debian.org/debian buster/main amd64 libncursesw6 amd64 6.1+20181013-2+deb10u2 [132 kB] Get:35 http://deb.debian.org/debian buster/main amd64 libmount1 amd64 2.33.1-0.1 [207 kB] Get:36 http://deb.debian.org/debian buster/main amd64 fdisk amd64 2.33.1-0.1 [179 kB] Get:37 http://deb.debian.org/debian buster/main amd64 login amd64 1:4.5-1.1 [751 kB] Get:38 http://deb.debian.org/debian buster/main amd64 util-linux amd64 2.33.1-0.1 [1062 kB] Get:39 http://deb.debian.org/debian buster/main amd64 mount amd64 2.33.1-0.1 [174 kB] Get:40 http://deb.debian.org/debian buster/main amd64 ncurses-bin amd64 6.1+20181013-2+deb10u2 [406 kB] Get:41 http://deb.debian.org/debian buster/main amd64 perl-modules-5.28 all 5.28.1-6+deb10u1 [2873 kB] Get:42 http://deb.debian.org/debian buster/main amd64 libgdbm6 amd64 1.18.1-4 [64.7 kB] Get:43 http://deb.debian.org/debian buster/main amd64 libgdbm-compat4 amd64 1.18.1-4 [44.1 kB] Get:44 http://deb.debian.org/debian buster/main amd64 libperl5.28 amd64 5.28.1-6+deb10u1 [3894 kB] Get:45 http://deb.debian.org/debian buster/main amd64 perl amd64 5.28.1-6+deb10u1 [204 kB] Get:46 http://deb.debian.org/debian buster/main amd64 perl-base amd64 5.28.1-6+deb10u1 [1514 kB] Get:47 http://deb.debian.org/debian buster/main amd64 libtinfo5 amd64 6.1+20181013-2+deb10u2 [321 kB] Get:48 http://deb.debian.org/debian buster/main amd64 libncursesw5 amd64 6.1+20181013-2+deb10u2 [118 kB] Get:49 http://deb.debian.org/debian buster/main amd64 ncurses-base all 6.1+20181013-2+deb10u2 [258 kB] Get:50 http://deb.debian.org/debian buster/main amd64 libpam-modules-bin amd64 1.3.1-5 [107 kB] Get:51 http://deb.debian.org/debian buster/main amd64 libpam-modules amd64 1.3.1-5 [309 kB] Get:52 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u3 [1551 kB] Get:53 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get:54 http://deb.debian.org/debian buster/main amd64 python2.7-dev amd64 2.7.16-2+deb10u1 [294 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libpython2.7-dev amd64 2.7.16-2+deb10u1 [31.6 MB] Get:56 http://deb.debian.org/debian buster/main amd64 libpython2.7 amd64 2.7.16-2+deb10u1 [1036 kB] Get:57 http://deb.debian.org/debian buster/main amd64 libexpat1-dev amd64 2.2.6-2+deb10u4 [155 kB] Get:58 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u4 [108 kB] Get:59 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get:60 http://deb.debian.org/debian buster/main amd64 libquadmath0 amd64 8.3.0-6 [133 kB] Get:61 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get:62 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get:63 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get:64 http://deb.debian.org/debian buster/main amd64 python-numpy amd64 1:1.16.2-1 [2101 kB] Get:65 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] Get:66 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u4 [122 kB] Get:67 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u4 [65.9 kB] Get:68 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u4 [158 kB] Get:69 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u4 [369 kB] Get:70 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u7 [224 kB] Get:71 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:72 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] Get:73 http://deb.debian.org/debian buster/main amd64 python-pysam amd64 0.15.2+ds-2 [1629 kB] Get:74 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-12~deb10u1 [305 kB] Get:75 http://deb.debian.org/debian buster/main amd64 python-scipy amd64 1.1.0-7 [10.1 MB] Get:76 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:77 http://deb.debian.org/debian buster/main amd64 libsqlite3-0 amd64 3.27.2-3+deb10u1 [641 kB] Get:78 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get:79 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get:80 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get:81 http://deb.debian.org/debian buster/main amd64 python-dev amd64 2.7.16-1 [1192 B] Get:82 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get:83 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get:84 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get:85 http://deb.debian.org/debian buster/main amd64 libpython-dev amd64 2.7.16-1 [20.9 kB] Get:86 http://deb.debian.org/debian buster/main amd64 libpython2-dev amd64 2.7.16-1 [20.9 kB] Get:87 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get:88 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get:89 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get:90 http://deb.debian.org/debian buster/main amd64 python2-dev amd64 2.7.16-1 [1212 B] Get:91 http://deb.debian.org/debian buster/main amd64 libss2 amd64 1.44.5-1+deb10u3 [72.9 kB] Get:92 http://deb.debian.org/debian buster/main amd64 binutils amd64 2.31.1-16 [56.8 kB] Get:93 http://deb.debian.org/debian buster/main amd64 binutils-common amd64 2.31.1-16 [2073 kB] Get:94 http://deb.debian.org/debian buster/main amd64 libbinutils amd64 2.31.1-16 [478 kB] Get:95 http://deb.debian.org/debian buster/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-16 [1823 kB] Get:96 http://deb.debian.org/debian buster/main amd64 libatomic1 amd64 8.3.0-6 [9032 B] Get:97 http://deb.debian.org/debian buster/main amd64 libtbb2 amd64 2018~U6-4 [147 kB] Get:98 http://deb.debian.org/debian buster/main amd64 bowtie amd64 1.2.2+dfsg-4 [1670 kB] Get:99 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1n-0+deb10u3 [855 kB] Get:100 http://deb.debian.org/debian buster/main amd64 ca-certificates all 20200601~deb10u2 [166 kB] Get:101 http://deb.debian.org/debian buster/main amd64 libisl19 amd64 0.20-2 [587 kB] Get:102 http://deb.debian.org/debian buster/main amd64 libmpc3 amd64 1.1.0-1 [41.3 kB] Get:103 http://deb.debian.org/debian buster/main amd64 libmpfr6 amd64 4.0.2-1 [775 kB] Get:104 http://deb.debian.org/debian buster/main amd64 cpp-8 amd64 8.3.0-6 [8914 kB] Get:105 http://deb.debian.org/debian buster/main amd64 cpp amd64 4:8.3.0-1 [19.4 kB] Get:106 http://deb.debian.org/debian buster/main amd64 e2fsprogs-l10n all 1.44.5-1+deb10u3 [504 kB] Get:107 http://deb.debian.org/debian buster/main amd64 libcc1-0 amd64 8.3.0-6 [46.6 kB] Get:108 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:109 http://deb.debian.org/debian buster/main amd64 libitm1 amd64 8.3.0-6 [27.7 kB] Get:110 http://deb.debian.org/debian buster/main amd64 libasan5 amd64 8.3.0-6 [362 kB] Get:111 http://deb.debian.org/debian buster/main amd64 liblsan0 amd64 8.3.0-6 [131 kB] Get:112 http://deb.debian.org/debian buster/main amd64 libtsan0 amd64 8.3.0-6 [283 kB] Get:113 http://deb.debian.org/debian buster/main amd64 libubsan1 amd64 8.3.0-6 [120 kB] Get:114 http://deb.debian.org/debian buster/main amd64 libmpx2 amd64 8.3.0-6 [11.4 kB] Get:115 http://deb.debian.org/debian buster/main amd64 libgcc-8-dev amd64 8.3.0-6 [2298 kB] Get:116 http://deb.debian.org/debian buster/main amd64 gcc-8 amd64 8.3.0-6 [9452 kB] Get:117 http://deb.debian.org/debian buster/main amd64 gcc amd64 4:8.3.0-1 [5196 B] Get:118 http://deb.debian.org/debian buster/main amd64 libstdc++-8-dev amd64 8.3.0-6 [1532 kB] Get:119 http://deb.debian.org/debian buster/main amd64 g++-8 amd64 8.3.0-6 [9752 kB] Get:120 http://deb.debian.org/debian buster/main amd64 g++ amd64 4:8.3.0-1 [1644 B] Get:121 http://deb.debian.org/debian buster/main amd64 gcc-7-base amd64 7.4.0-6 [190 kB] Get:122 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get:123 http://deb.debian.org/debian buster/main amd64 libtiff5 amd64 4.1.0+git191117-2~deb10u4 [271 kB] Get:124 http://deb.debian.org/debian buster/main amd64 libgdk-pixbuf2.0-0 amd64 2.38.1+dfsg-1 [177 kB] Get:125 http://deb.debian.org/debian buster/main amd64 libgdk-pixbuf2.0-common all 2.38.1+dfsg-1 [316 kB] Get:126 http://deb.debian.org/debian buster/main amd64 gtk-update-icon-cache amd64 3.24.5-1 [81.7 kB] Get:127 http://deb.debian.org/debian buster/main amd64 libatk1.0-0 amd64 2.30.0-2 [50.6 kB] Get:128 http://deb.debian.org/debian buster/main amd64 libatk1.0-data all 2.30.0-2 [145 kB] Get:129 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get:130 http://deb.debian.org/debian buster/main amd64 libcilkrts5 amd64 7.4.0-6 [42.2 kB] Get:131 http://deb.debian.org/debian buster/main amd64 libcups2 amd64 2.2.10-6+deb10u6 [325 kB] Get:132 http://deb.debian.org/debian buster/main amd64 libfribidi0 amd64 1.0.5-3.1+deb10u2 [63.9 kB] Get:133 http://deb.debian.org/debian buster/main amd64 libgdk-pixbuf2.0-bin amd64 2.38.1+dfsg-1 [24.1 kB] Get:134 http://deb.debian.org/debian buster/main amd64 libgpg-error-l10n all 1.35-1 [97.6 kB] Get:135 http://deb.debian.org/debian buster/main amd64 libgpm2 amd64 1.20.7-5 [35.1 kB] Get:136 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u3 [8293 kB] Get:137 http://deb.debian.org/debian buster/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get:138 http://deb.debian.org/debian buster/main amd64 liblmdb0 amd64 0.9.22-1 [45.0 kB] Get:139 http://deb.debian.org/debian buster/main amd64 libmbedcrypto3 amd64 2.16.0-1 [209 kB] Get:140 http://deb.debian.org/debian buster/main amd64 libmbedx509-0 amd64 2.16.0-1 [91.4 kB] Get:141 http://deb.debian.org/debian buster/main amd64 libmbedtls12 amd64 2.16.0-1 [130 kB] Get:142 http://deb.debian.org/debian buster/main amd64 libpango-1.0-0 amd64 1.42.4-8~deb10u1 [186 kB] Get:143 http://deb.debian.org/debian buster/main amd64 libpangoft2-1.0-0 amd64 1.42.4-8~deb10u1 [68.3 kB] Get:144 http://deb.debian.org/debian buster/main amd64 libpangocairo-1.0-0 amd64 1.42.4-8~deb10u1 [55.7 kB] Get:145 http://deb.debian.org/debian buster/main amd64 libubsan0 amd64 7.4.0-6 [124 kB] Get:146 http://deb.debian.org/debian buster/main amd64 libwebpmux3 amd64 0.6.1-2+deb10u1 [97.8 kB] Get:147 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u4 [689 kB] Get:148 http://deb.debian.org/debian buster/main amd64 ncbi-blast+ amd64 2.8.1-1+deb10u1 [10.9 MB] Get:149 http://deb.debian.org/debian buster/main amd64 python-backports.functools-lru-cache all 1.5-3 [6704 B] Get:150 http://deb.debian.org/debian buster/main amd64 python-biopython amd64 1.73+dfsg-1 [1334 kB] Get:151 http://deb.debian.org/debian buster/main amd64 python-biopython-doc all 1.73+dfsg-1 [14.1 MB] Get:152 http://deb.debian.org/debian buster/main amd64 python-glade2 amd64 2.24.0-5.1+b1 [43.6 kB] Get:153 http://deb.debian.org/debian buster/main amd64 python-gtk2 amd64 2.24.0-5.1+b1 [633 kB] Get:154 http://deb.debian.org/debian buster/main amd64 python-kiwisolver amd64 1.0.1-2+b1 [67.3 kB] Get:155 http://deb.debian.org/debian buster/main amd64 python-matplotlib2-data all 2.2.3-6 [4124 kB] Get:156 http://deb.debian.org/debian buster/main amd64 python-matplotlib amd64 2.2.3-6 [5073 kB] Get:157 http://deb.debian.org/debian buster/main amd64 python-olefile all 0.46-1 [35.9 kB] Get:158 http://deb.debian.org/debian buster/main amd64 python-pil amd64 5.4.1-2+deb10u3 [395 kB] Get:159 http://deb.debian.org/debian buster/main amd64 rename all 1.10-1 [17.2 kB] Get:160 http://deb.debian.org/debian buster/main amd64 seqan-apps amd64 2.4.0+dfsg-11 [11.4 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 196 MB in 1s (128 MB/s) (Reading database ... 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Selecting previously unselected package gcc-8-base:amd64. (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 ... 29781 files and directories currently installed.) Preparing to unpack .../gcc-8-base_8.3.0-6_amd64.deb ... Unpacking gcc-8-base:amd64 (8.3.0-6) ... Setting up gcc-8-base:amd64 (8.3.0-6) ... (Reading database ... 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(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 ... 29787 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libtinfo6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libtinfo6:amd64 (6.1+20181013-2+deb10u2) ... (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 ... 29797 files and directories currently installed.) Preparing to unpack .../archives/bash_5.0-4_amd64.deb ... Unpacking bash (5.0-4) over (4.4-5) ... Setting up bash (5.0-4) ... Installing new version of config file /etc/bash.bashrc ... Installing new version of config file /etc/skel/.profile ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 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(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 ... 29804 files and directories currently installed.) Preparing to unpack .../libunistring2_0.9.10-1_amd64.deb ... Unpacking libunistring2:amd64 (0.9.10-1) ... Setting up libunistring2:amd64 (0.9.10-1) ... (Reading database ... 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(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 ... 29834 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.3.3-4_amd64.deb ... Unpacking libseccomp2:amd64 (2.3.3-4) ... Setting up libseccomp2:amd64 (2.3.3-4) ... (Reading database ... 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(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 ... 29821 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.12-1+deb10u2_amd64.deb ... Unpacking gpgv (2.2.12-1+deb10u2) over (2.1.18-8~deb9u4) ... Setting up gpgv (2.2.12-1+deb10u2) ... (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 ... 29821 files and directories currently installed.) Preparing to unpack .../libstdc++6_8.3.0-6_amd64.deb ... Unpacking libstdc++6:amd64 (8.3.0-6) over (6.3.0-18+deb9u1) ... Setting up libstdc++6:amd64 (8.3.0-6) ... (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 ... 29821 files and directories currently installed.) Preparing to unpack .../archives/apt_1.8.2.3_amd64.deb ... Unpacking apt (1.8.2.3) over (1.4.10) ... Preparing to unpack .../libapt-pkg5.0_1.8.2.3_amd64.deb ... Unpacking libapt-pkg5.0:amd64 (1.8.2.3) over (1.4.10) ... Setting up libapt-pkg5.0:amd64 (1.8.2.3) ... (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 ... 29849 files and directories currently installed.) Preparing to unpack .../libsystemd0_241-7~deb10u8_amd64.deb ... Unpacking libsystemd0:amd64 (241-7~deb10u8) over (232-25+deb9u12) ... Setting up libsystemd0:amd64 (241-7~deb10u8) ... (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 ... 29849 files and directories currently installed.) Preparing to unpack .../libudev1_241-7~deb10u8_amd64.deb ... Unpacking libudev1:amd64 (241-7~deb10u8) over (232-25+deb9u12) ... Setting up libudev1:amd64 (241-7~deb10u8) ... (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 ... 29849 files and directories currently installed.) Preparing to unpack .../archives/dpkg_1.19.8_amd64.deb ... Unpacking dpkg (1.19.8) over (1.18.25) ... Setting up dpkg (1.19.8) ... Installing new version of config file /etc/alternatives/README ... Installing new version of config file /etc/cron.daily/dpkg ... Installing new version of config file /etc/logrotate.d/dpkg ... (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 ... 29847 files and directories currently installed.) Preparing to unpack .../dash_0.5.10.2-5_amd64.deb ... Unpacking dash (0.5.10.2-5) over (0.5.8-2.4) ... Setting up dash (0.5.10.2-5) ... (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 ... 29848 files and directories currently installed.) Preparing to unpack .../libcomerr2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libcomerr2:amd64 (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../libcom-err2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libcom-err2:amd64 (1.44.5-1+deb10u3) ... Setting up libcom-err2:amd64 (1.44.5-1+deb10u3) ... (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 ... 29851 files and directories currently installed.) Preparing to unpack .../e2fslibs_1.44.5-1+deb10u3_amd64.deb ... Unpacking e2fslibs:amd64 (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Selecting previously unselected package libext2fs2:amd64. Preparing to unpack .../libext2fs2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libext2fs2:amd64 (1.44.5-1+deb10u3) ... Setting up libext2fs2:amd64 (1.44.5-1+deb10u3) ... (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 ... 29854 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.44.5-1+deb10u3_amd64.deb ... Unpacking e2fsprogs (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Setting up e2fsprogs (1.44.5-1+deb10u3) ... Installing new version of config file /etc/mke2fs.conf ... (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 ... 29837 files and directories currently installed.) Preparing to unpack .../libuuid1_2.33.1-0.1_amd64.deb ... Unpacking libuuid1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libuuid1:amd64 (2.33.1-0.1) ... (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 ... 29837 files and directories currently installed.) Preparing to unpack .../libblkid1_2.33.1-0.1_amd64.deb ... Unpacking libblkid1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libblkid1:amd64 (2.33.1-0.1) ... (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 ... 29837 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.33.1-0.1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libsmartcols1:amd64 (2.33.1-0.1) ... (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 ... 29837 files and directories currently installed.) Preparing to unpack .../libfdisk1_2.33.1-0.1_amd64.deb ... Unpacking libfdisk1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libfdisk1:amd64 (2.33.1-0.1) ... Selecting previously unselected package libncursesw6:amd64. (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 ... 29837 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libncursesw6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libncursesw6:amd64 (6.1+20181013-2+deb10u2) ... (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 ... 29846 files and directories currently installed.) Preparing to unpack .../libmount1_2.33.1-0.1_amd64.deb ... Unpacking libmount1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libmount1:amd64 (2.33.1-0.1) ... (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 ... 29846 files and directories currently installed.) Preparing to unpack .../mount_2.33.1-0.1_amd64.deb ... Unpacking mount (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Preparing to unpack .../util-linux_2.33.1-0.1_amd64.deb ... Unpacking util-linux (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Replacing files in old package login (1:4.4-4.1) ... Selecting previously unselected package fdisk. Preparing to unpack .../fdisk_2.33.1-0.1_amd64.deb ... 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Unpacking libmbedtls12:amd64 (2.16.0-1) ... Preparing to unpack .../50-libpango-1.0-0_1.42.4-8~deb10u1_amd64.deb ... Unpacking libpango-1.0-0:amd64 (1.42.4-8~deb10u1) over (1.40.5-1) ... Preparing to unpack .../51-libpangoft2-1.0-0_1.42.4-8~deb10u1_amd64.deb ... Unpacking libpangoft2-1.0-0:amd64 (1.42.4-8~deb10u1) over (1.40.5-1) ... Preparing to unpack .../52-libpangocairo-1.0-0_1.42.4-8~deb10u1_amd64.deb ... Unpacking libpangocairo-1.0-0:amd64 (1.42.4-8~deb10u1) over (1.40.5-1) ... Preparing to unpack .../53-libubsan0_7.4.0-6_amd64.deb ... Unpacking libubsan0:amd64 (7.4.0-6) over (6.3.0-18+deb9u1) ... Selecting previously unselected package libwebpmux3:amd64. Preparing to unpack .../54-libwebpmux3_0.6.1-2+deb10u1_amd64.deb ... Unpacking libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Preparing to unpack .../55-libxml2_2.9.4+dfsg1-7+deb10u4_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) over (2.9.4+dfsg1-2.2+deb9u2) ... 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Setting up libexpat1:amd64 (2.2.6-2+deb10u4) ... Setting up liblmdb0:amd64 (0.9.22-1) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up apt (1.8.2.3) ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt-compat ... Setting up libgpm2:amd64 (1.20.7-5) ... Setting up e2fslibs:amd64 (1.44.5-1+deb10u3) ... Setting up e2fsprogs-l10n (1.44.5-1+deb10u3) ... Setting up libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... No schema files found: doing nothing. Setting up libssl1.1:amd64 (1.1.1n-0+deb10u3) ... Setting up libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Setting up libgdk-pixbuf2.0-common (2.38.1+dfsg-1) ... Setting up binutils-common:amd64 (2.31.1-16) ... Setting up libdeflate0:amd64 (1.2-1) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Setting up libgomp1:amd64 (8.3.0-6) ... Setting up libicu63:amd64 (63.1-6+deb10u3) ... Setting up libkrb5support0:amd64 (1.17-3+deb10u4) ... Setting up libasan5:amd64 (8.3.0-6) ... Setting up gcc-7-base:amd64 (7.4.0-6) ... Setting up libmpfr6:amd64 (4.0.2-1) ... Setting up libfribidi0:amd64 (1.0.5-3.1+deb10u2) ... Setting up libquadmath0:amd64 (8.3.0-6) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up seqan-apps (2.4.0+dfsg-11) ... Setting up libmpc3:amd64 (1.1.0-1) ... Setting up libatomic1:amd64 (8.3.0-6) ... Setting up util-linux (2.33.1-0.1) ... update-alternatives: warning: alternative /usr/bin/pg (part of link group pager) doesn't exist; removing from list of alternatives Setting up libk5crypto3:amd64 (1.17-3+deb10u4) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up libmpx2:amd64 (8.3.0-6) ... Setting up libubsan1:amd64 (8.3.0-6) ... Setting up libatk1.0-data (2.30.0-2) ... Setting up libisl19:amd64 (0.20-2) ... Setting up python-matplotlib2-data (2.2.3-6) ... Setting up mount (2.33.1-0.1) ... Setting up libcomerr2:amd64 (1.44.5-1+deb10u3) ... Setting up libcilkrts5:amd64 (7.4.0-6) ... Setting up python-biopython-doc (1.73+dfsg-1) ... Setting up libubsan0:amd64 (7.4.0-6) ... Setting up libmbedcrypto3:amd64 (2.16.0-1) ... Setting up libatk1.0-0:amd64 (2.30.0-2) ... Setting up libkrb5-3:amd64 (1.17-3+deb10u4) ... Setting up libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Setting up libbinutils:amd64 (2.31.1-16) ... Setting up cpp-8 (8.3.0-6) ... Setting up libc-dev-bin (2.28-10+deb10u1) ... Setting up openssl (1.1.1n-0+deb10u3) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libgpg-error-l10n (1.35-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Setting up libcc1-0:amd64 (8.3.0-6) ... Setting up liblsan0:amd64 (8.3.0-6) ... Setting up libitm1:amd64 (8.3.0-6) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libgdbm6:amd64 (1.18.1-4) ... Setting up binutils-x86-64-linux-gnu (2.31.1-16) ... Setting up libtsan0:amd64 (8.3.0-6) ... Setting up libmbedx509-0:amd64 (2.16.0-1) ... Setting up libpango-1.0-0:amd64 (1.42.4-8~deb10u1) ... Setting up libtbb2:amd64 (2018~U6-4) ... Setting up libmbedtls12:amd64 (2.16.0-1) ... Setting up binutils (2.31.1-16) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Setting up ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 11 added, 0 removed; done. Setting up libblas3:amd64 (3.8.0-2) ... 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 libgdk-pixbuf2.0-0:amd64 (2.38.1+dfsg-1) ... Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Setting up libgdbm-compat4:amd64 (1.18.1-4) ... Setting up libgcc-8-dev:amd64 (8.3.0-6) ... Setting up libperl5.28:amd64 (5.28.1-6+deb10u1) ... Setting up libcups2:amd64 (2.2.10-6+deb10u6) ... Setting up libgdk-pixbuf2.0-bin (2.38.1+dfsg-1) ... Setting up cpp (4:8.3.0-1) ... Setting up libc6-dev:amd64 (2.28-10+deb10u1) ... Setting up libpangoft2-1.0-0:amd64 (1.42.4-8~deb10u1) ... Setting up libpangocairo-1.0-0:amd64 (1.42.4-8~deb10u1) ... Setting up libstdc++-8-dev:amd64 (8.3.0-6) ... Setting up gtk-update-icon-cache (3.24.5-1) ... Setting up libpython2.7:amd64 (2.7.16-2+deb10u1) ... Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up gcc-8 (8.3.0-6) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Setting up python2 (2.7.16-1) ... Setting up gcc (4:8.3.0-1) ... Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up perl (5.28.1-6+deb10u1) ... Removing obsolete conffile /etc/perl/sitecustomize.pl ... Setting up libexpat1-dev:amd64 (2.2.6-2+deb10u4) ... Setting up g++-8 (8.3.0-6) ... Setting up python (2.7.16-1) ... Setting up libpython2.7-dev:amd64 (2.7.16-2+deb10u1) ... Setting up libhts2:amd64 (1.9-12~deb10u1) ... Setting up bowtie (1.2.2+dfsg-4) ... Setting up python-pkg-resources (40.8.0-1) ... Setting up rename (1.10-1) ... Setting up python-pil:amd64 (5.4.1-2+deb10u3) ... Setting up ncbi-blast+ (2.8.1-1+deb10u1) ... Setting up python-backports.functools-lru-cache (1.5-3) ... Setting up g++ (4:8.3.0-1) ... Setting up python-kiwisolver (1.0.1-2+b1) ... Setting up libpython2-dev:amd64 (2.7.16-1) ... Setting up python-olefile (0.46-1) ... Setting up python2.7-dev (2.7.16-2+deb10u1) ... Setting up python-pysam (0.15.2+ds-2) ... Setting up python2-dev (2.7.16-1) ... Setting up python-numpy (1:1.16.2-1) ... Setting up python-matplotlib (2.2.3-6) ... Setting up python-gtk2 (2.24.0-5.1+b1) ... Setting up libpython-dev:amd64 (2.7.16-1) ... Setting up python-biopython (1.73+dfsg-1) ... Setting up python-glade2 (2.24.0-5.1+b1) ... Setting up python-scipy (1.1.0-7) ... Setting up python-dev (2.7.16-1) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... Processing triggers for mime-support (3.62) ... Processing triggers for ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 1m42.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-yf', 'dist-upgrade'] 1m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m43.2s DUMP: f6fc0f2636004ef589309651dfd778f4 - 1m43.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m43.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'show', '--no-all-versions', 'gasic'] 1m43.4s DUMP: Package: gasic Version: 0.0.r19-4 Installed-Size: 74 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python:any (>= 2.6.6-7~), python-scipy, python-numpy, python-biopython, python-pysam, python-matplotlib, bowtie, bowtie2, bwa, seqan-apps Description-en: genome abundance similarity correction One goal of sequencing based metagenomic analysis is the quantitative taxonomic assessment of microbial community compositions. However, the majority of approaches either quantify at low resolution (e.g. at phylum level) or have severe problems discerning highly similar species. Yet, accurate quantification on species level is desirable in applications such as metagenomic diagnostics or community comparison. GASiC is a method to correct read alignment results for the ambiguities imposed by similarities of genomes. It has superior performance over existing methods. Description-md5: bdb1fbe60cfde219955bdb0d4f72e27c Homepage: http://sourceforge.net/projects/gasic/ Section: science Priority: optional Filename: pool/main/g/gasic/gasic_0.0.r19-4_amd64.deb Size: 20260 MD5sum: 96971d0a1e8887a5cabac3ebac20b47b SHA256: d44088f8b948ca52a0fa6d2236209740b6dc0174a56726626fbaf979811c63e8 1m43.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'show', '--no-all-versions', 'gasic'] 1m43.4s INFO: apt-cache knows about the following packages: gasic 1m43.4s INFO: Running scripts pre_install 1m43.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_database-server'] 1m43.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_database-server'] 1m43.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_exceptions'] 1m43.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_exceptions'] 1m43.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_extras'] 1m43.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_extras'] 1m43.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture'] 1m43.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture'] 1m43.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m43.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m43.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy'] 1m43.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m43.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy'] 1m43.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy', 'gasic'] 1m43.5s DUMP: gasic: Installed: 0.0.r19-4 Candidate: 0.0.r19-4 Version table: *** 0.0.r19-4 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 1m43.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy', 'gasic'] 1m43.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-y', 'install', 'gasic'] 1m43.8s DUMP: Reading package lists... Building dependency tree... Reading state information... gasic is already the newest version (0.0.r19-4). The following packages were automatically installed and are no longer required: dbus gnome-icon-theme gtk-update-icon-cache hicolor-icon-theme libapparmor1 libart-2.0-2 libatk1.0-0 libatk1.0-data libavahi-client3 libavahi-common-data libavahi-common3 libblas-common libcups2 libdbus-1-3 libgail-common libgail18 libgdbm3 libgfortran3 libglade2-0 libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libhts1 libicu57 libidn11 libperl5.24 libunistring0 libwebpmux2 libxcomposite1 libxcursor1 libxdamage1 libxfixes3 libxi6 libxinerama1 libxrandr2 python-cairo python-functools32 python-glade2 python-gtk2 python-imaging python-matplotlib-data rename sgml-base xml-core Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m43.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-y', 'install', 'gasic'] 1m43.8s INFO: Running scripts post_install 1m43.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_install_exceptions'] 1m43.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_install_exceptions'] 1m43.8s INFO: Running scripts post_distupgrade 1m43.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m43.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m43.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_exceptions'] 1m43.9s DUMP: Normalized /etc/ca-certificates.conf removed empty directory '/etc/dbus-1/system.d' Running pam-auth-update... 1m43.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_exceptions'] 1m43.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m43.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m43.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m43.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m43.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_zz_backports'] 1m44.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_distupgrade_zz_backports'] 1m44.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 1m45.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 1m45.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 1m46.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 1m46.7s INFO: Running scripts pre_install 1m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_database-server'] 1m46.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_database-server'] 1m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_exceptions'] 1m46.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_exceptions'] 1m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_extras'] 1m46.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_extras'] 1m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture'] 1m46.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture'] 1m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m46.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy'] 1m46.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m46.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy'] 1m46.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy', 'gasic'] 1m46.8s DUMP: gasic: Installed: 0.0.r19-4 Candidate: 0.0.r19-4 Version table: *** 0.0.r19-4 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 1m46.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-cache', 'policy', 'gasic'] 1m46.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-y', 'install', 'gasic=0.0.r19-4'] 1m47.1s DUMP: Reading package lists... Building dependency tree... Reading state information... gasic is already the newest version (0.0.r19-4). The following packages were automatically installed and are no longer required: dbus gnome-icon-theme gtk-update-icon-cache hicolor-icon-theme libapparmor1 libart-2.0-2 libatk1.0-0 libatk1.0-data libavahi-client3 libavahi-common-data libavahi-common3 libblas-common libcups2 libdbus-1-3 libgail-common libgail18 libgdbm3 libgfortran3 libglade2-0 libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libhts1 libicu57 libidn11 libperl5.24 libunistring0 libwebpmux2 libxcomposite1 libxcursor1 libxdamage1 libxfixes3 libxi6 libxinerama1 libxrandr2 python-cairo python-functools32 python-glade2 python-gtk2 python-imaging python-matplotlib-data rename sgml-base xml-core Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m47.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', '-y', 'install', 'gasic=0.0.r19-4'] 1m47.1s INFO: Running scripts post_install 1m47.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_install_exceptions'] 1m47.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_install_exceptions'] 1m47.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 1m48.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 1m50.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', '-ac', '--ignore-obsolete'] 1m53.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', '-ac', '--ignore-obsolete'] 1m53.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m53.9s DUMP: 0.15.6 1m53.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m53.9s INFO: Running adequate version 0.15.6 now. 1m53.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'gasic'] 1m54.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'gasic'] 1m54.0s INFO: Running scripts pre_remove 1m54.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m54.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m54.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m54.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m54.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m59.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m59.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m59.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m59.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m60.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m60.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_exceptions'] 2m0.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/pre_remove_exceptions'] 2m0.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m0.1s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed binutils binutils 2.31.1-16 install ok installed binutils-common:amd64 binutils-common 2.31.1-16 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.31.1-16 install ok installed blt blt 2.5.3+dfsg-4 install ok installed bowtie bowtie 1.2.2+dfsg-4 install ok installed bowtie2 bowtie2 2.3.4.3-1 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed bwa bwa 0.7.17-3 install ok installed bzip2 bzip2 1.0.6-9.2~deb10u1 install ok installed ca-certificates ca-certificates 20200601~deb10u2 install ok installed coreutils coreutils 8.30-3 install ok installed cpp cpp 4:8.3.0-1 install ok installed cpp-6 cpp-6 6.3.0-18+deb9u1 install ok installed cpp-8 cpp-8 8.3.0-6 install ok installed dash dash 0.5.10.2-5 install ok installed dbus dbus 1.12.20-0+deb10u1 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fslibs:amd64 e2fslibs 1.44.5-1+deb10u3 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed e2fsprogs-l10n e2fsprogs-l10n 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed file file 1:5.35-4+deb10u2 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed fontconfig fontconfig 2.13.1-2 install ok installed fontconfig-config fontconfig-config 2.13.1-2 install ok installed fonts-lyx fonts-lyx 2.3.2-1 install ok installed g++ g++ 4:8.3.0-1 install ok installed g++-6 g++-6 6.3.0-18+deb9u1 install ok installed g++-8 g++-8 8.3.0-6 install ok installed gasic gasic 0.0.r19-4 install ok installed gcc gcc 4:8.3.0-1 install ok installed gcc-6 gcc-6 6.3.0-18+deb9u1 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gcc-7-base:amd64 gcc-7-base 7.4.0-6 install ok installed gcc-8 gcc-8 8.3.0-6 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gnome-icon-theme gnome-icon-theme 3.12.0-3 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gsfonts gsfonts 1:8.11+urwcyr1.0.7~pre44-4.4 install ok installed gtk-update-icon-cache gtk-update-icon-cache 3.24.5-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hicolor-icon-theme hicolor-icon-theme 0.17-2 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed javascript-common javascript-common 11 install ok installed krb5-locales krb5-locales 1.17-3+deb10u4 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapparmor1:amd64 libapparmor1 2.13.2-10 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libart-2.0-2:amd64 libart-2.0-2 2.3.21-4 install ok installed libasan3:amd64 libasan3 6.3.0-18+deb9u1 install ok installed libasan5:amd64 libasan5 8.3.0-6 install ok installed libatk1.0-0:amd64 libatk1.0-0 2.30.0-2 install ok installed libatk1.0-data libatk1.0-data 2.30.0-2 install ok installed libatomic1:amd64 libatomic1 8.3.0-6 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libavahi-client3:amd64 libavahi-client3 0.7-4+deb10u1 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.7-4+deb10u1 install ok installed libavahi-common3:amd64 libavahi-common3 0.7-4+deb10u1 install ok installed libbinutils:amd64 libbinutils 2.31.1-16 install ok installed libblas-common libblas-common 3.7.0-2 install ok installed libblas3:amd64 libblas3 3.8.0-2 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbsd0:amd64 libbsd0 0.9.1-2+deb10u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc-dev-bin libc-dev-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libc6-dev:amd64 libc6-dev 2.28-10+deb10u1 install ok installed libcairo2:amd64 libcairo2 1.16.0-4+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcc1-0:amd64 libcc1-0 8.3.0-6 install ok installed libcilkrts5:amd64 libcilkrts5 7.4.0-6 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libcomerr2:amd64 libcomerr2 1.44.5-1+deb10u3 install ok installed libcroco3:amd64 libcroco3 0.6.12-3 install ok installed libcups2:amd64 libcups2 2.2.10-6+deb10u6 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.64.0-4+deb10u2 install ok installed libdatrie1:amd64 libdatrie1 0.2.12-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.12.20-0+deb10u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libdeflate0:amd64 libdeflate0 1.2-1 install ok installed libexpat1:amd64 libexpat1 2.2.6-2+deb10u4 install ok installed libexpat1-dev:amd64 libexpat1-dev 2.2.6-2+deb10u4 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-2 install ok installed libfreetype6:amd64 libfreetype6 2.9.1-3+deb10u3 install ok installed libfribidi0:amd64 libfribidi0 1.0.5-3.1+deb10u2 install ok installed libgail-common:amd64 libgail-common 2.24.32-3 install ok installed libgail18:amd64 libgail18 2.24.32-3 install ok installed libgcc-6-dev:amd64 libgcc-6-dev 6.3.0-18+deb9u1 install ok installed libgcc-8-dev:amd64 libgcc-8-dev 8.3.0-6 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.18.1-4 install ok installed libgdbm3:amd64 libgdbm3 1.8.3-14 install ok installed libgdbm6:amd64 libgdbm6 1.18.1-4 install ok installed libgdk-pixbuf2.0-0:amd64 libgdk-pixbuf2.0-0 2.38.1+dfsg-1 install ok installed libgdk-pixbuf2.0-bin libgdk-pixbuf2.0-bin 2.38.1+dfsg-1 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.38.1+dfsg-1 install ok installed libgfortran3:amd64 libgfortran3 6.3.0-18+deb9u1 install ok installed libgfortran5:amd64 libgfortran5 8.3.0-6 install ok installed libglade2-0:amd64 libglade2-0 1:2.6.4-2+b1 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.58.3-2+deb10u3 install ok installed libglib2.0-data libglib2.0-data 2.58.3-2+deb10u3 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgomp1:amd64 libgomp1 8.3.0-6 install ok installed libgpg-error-l10n libgpg-error-l10n 1.35-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libgpm2:amd64 libgpm2 1.20.7-5 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.13-7 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.17-3+deb10u4 install ok installed libgtk2.0-0:amd64 libgtk2.0-0 2.24.32-3 install ok installed libgtk2.0-bin libgtk2.0-bin 2.24.32-3 install ok installed libgtk2.0-common libgtk2.0-common 2.24.32-3 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 2.3.1-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libhts1:amd64 libhts1 1.3.2-2 install ok installed libhts2:amd64 libhts2 1.9-12~deb10u1 install ok installed libicu57:amd64 libicu57 57.1-6+deb9u4 install ok installed libicu63:amd64 libicu63 63.1-6+deb10u3 install ok installed libidn11:amd64 libidn11 1.33-2.2 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed libimagequant0:amd64 libimagequant0 2.12.2-1.1 install ok installed libisl15:amd64 libisl15 0.18-1 install ok installed libisl19:amd64 libisl19 0.20-2 install ok installed libitm1:amd64 libitm1 8.3.0-6 install ok installed libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:1.5.2-2+deb10u1 install ok installed libjs-jquery libjs-jquery 3.3.1~dfsg-3+deb10u1 install ok installed libjs-jquery-ui libjs-jquery-ui 1.12.1+dfsg-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.17-3+deb10u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6-6 install ok installed libkrb5-3:amd64 libkrb5-3 1.17-3+deb10u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.17-3+deb10u4 install ok installed liblapack3:amd64 liblapack3 3.8.0-2 install ok installed liblcms2-2:amd64 liblcms2-2 2.9-3 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.47+dfsg-3+deb10u7 install ok installed libldap-common libldap-common 2.4.47+dfsg-3+deb10u7 install ok installed liblmdb0:amd64 liblmdb0 0.9.22-1 install ok installed liblsan0:amd64 liblsan0 8.3.0-6 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmagic-mgc libmagic-mgc 1:5.35-4+deb10u2 install ok installed libmagic1:amd64 libmagic1 1:5.35-4+deb10u2 install ok installed libmbedcrypto3:amd64 libmbedcrypto3 2.16.0-1 install ok installed libmbedtls12:amd64 libmbedtls12 2.16.0-1 install ok installed libmbedx509-0:amd64 libmbedx509-0 2.16.0-1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libmpc3:amd64 libmpc3 1.1.0-1 install ok installed libmpfr4:amd64 libmpfr4 3.1.5-1 install ok installed libmpfr6:amd64 libmpfr6 4.0.2-1 install ok installed libmpx2:amd64 libmpx2 8.3.0-6 install ok installed libncursesw5:amd64 libncursesw5 6.1+20181013-2+deb10u2 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.36.0-2+deb10u1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.42.4-8~deb10u1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.42.4-8~deb10u1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.42.4-8~deb10u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libperl5.24:amd64 libperl5.24 5.24.1-3+deb9u7 install ok installed libperl5.28:amd64 libperl5.28 5.28.1-6+deb10u1 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.36.0-1 install ok installed libpng16-16:amd64 libpng16-16 1.6.36-6 install ok installed libpsl5:amd64 libpsl5 0.20.2-2 install ok installed libpython-dev:amd64 libpython-dev 2.7.16-1 install ok installed libpython-stdlib:amd64 libpython-stdlib 2.7.16-1 install ok installed libpython2-dev:amd64 libpython2-dev 2.7.16-1 install ok installed libpython2-stdlib:amd64 libpython2-stdlib 2.7.16-1 install ok installed libpython2.7:amd64 libpython2.7 2.7.16-2+deb10u1 install ok installed libpython2.7-dev:amd64 libpython2.7-dev 2.7.16-2+deb10u1 install ok installed libpython2.7-minimal:amd64 libpython2.7-minimal 2.7.16-2+deb10u1 install ok installed libpython2.7-stdlib:amd64 libpython2.7-stdlib 2.7.16-2+deb10u1 install ok installed libquadmath0:amd64 libquadmath0 8.3.0-6 install ok installed libreadline7:amd64 libreadline7 7.0-5 install ok installed librsvg2-2:amd64 librsvg2-2 2.44.10-2.1+deb10u3 install ok installed librsvg2-common:amd64 librsvg2-common 2.44.10-2.1+deb10u3 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.27+dfsg-1+deb10u2 install ok installed libsasl2-modules:amd64 libsasl2-modules 2.1.27+dfsg-1+deb10u2 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27+dfsg-1+deb10u2 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.27.2-3+deb10u1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libssh2-1:amd64 libssh2-1 1.8.0-2.1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1n-0+deb10u3 install ok installed libstdc++-6-dev:amd64 libstdc++-6-dev 6.3.0-18+deb9u1 install ok installed libstdc++-8-dev:amd64 libstdc++-8-dev 8.3.0-6 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtbb2:amd64 libtbb2 2018~U6-4 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.9+dfsg-2 install ok installed libthai-data libthai-data 0.1.28-2 install ok installed libthai0:amd64 libthai0 0.1.28-2 install ok installed libtiff5:amd64 libtiff5 4.1.0+git191117-2~deb10u4 install ok installed libtinfo5:amd64 libtinfo5 6.1+20181013-2+deb10u2 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libtk8.6:amd64 libtk8.6 8.6.9-2 install ok installed libtsan0:amd64 libtsan0 8.3.0-6 install ok installed libubsan0:amd64 libubsan0 7.4.0-6 install ok installed libubsan1:amd64 libubsan1 8.3.0-6 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring0:amd64 libunistring0 0.9.6+really0.9.3-0.1 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libwebp6:amd64 libwebp6 0.6.1-2+deb10u1 install ok installed libwebpdemux2:amd64 libwebpdemux2 0.6.1-2+deb10u1 install ok installed libwebpmux2:amd64 libwebpmux2 0.5.2-1 install ok installed libwebpmux3:amd64 libwebpmux3 0.6.1-2+deb10u1 install ok installed libx11-6:amd64 libx11-6 2:1.6.7-1+deb10u2 install ok installed libx11-data libx11-data 2:1.6.7-1+deb10u2 install ok installed libxau6:amd64 libxau6 1:1.0.8-1+b2 install ok installed libxcb-render0:amd64 libxcb-render0 1.13.1-2 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.13.1-2 install ok installed libxcb1:amd64 libxcb1 1.13.1-2 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.4-2 install ok installed libxcursor1:amd64 libxcursor1 1:1.1.15-2 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.4-3+b3 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.3-1+b2 install ok installed libxfixes3:amd64 libxfixes3 1:5.0.3-1 install ok installed libxft2:amd64 libxft2 2.3.2-2 install ok installed libxi6:amd64 libxi6 2:1.7.9-1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.4-2 install ok installed libxml2:amd64 libxml2 2.9.4+dfsg1-7+deb10u4 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.1-1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed linux-libc-dev:amd64 linux-libc-dev 4.19.249-2 install ok installed login login 1:4.5-1.1 install ok installed lsb-base lsb-base 10.2019051400 install ok installed manpages manpages 4.16-2 install ok installed manpages-dev manpages-dev 4.16-2 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mime-support mime-support 3.62 install ok installed mount mount 2.33.1-0.1 install ok installed multiarch-support multiarch-support 2.28-10+deb10u1 install ok installed ncbi-blast+ ncbi-blast+ 2.8.1-1+deb10u1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-0+deb10u2 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed netbase netbase 5.6 install ok installed openssl openssl 1.1.1n-0+deb10u3 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl perl 5.28.1-6+deb10u1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed perl-modules-5.24 perl-modules-5.24 5.24.1-3+deb9u7 install ok installed perl-modules-5.28 perl-modules-5.28 5.28.1-6+deb10u1 install ok installed publicsuffix publicsuffix 20220811.1734-0+deb10u1 install ok installed python python 2.7.16-1 install ok installed python-backports.functools-lru-cache python-backports.functools-lru-cache 1.5-3 install ok installed python-biopython python-biopython 1.73+dfsg-1 install ok installed python-biopython-doc python-biopython-doc 1.73+dfsg-1 install ok installed python-cairo:amd64 python-cairo 1.16.2-1+b1 install ok installed python-cycler python-cycler 0.10.0-1 install ok installed python-dateutil python-dateutil 2.7.3-3 install ok installed python-decorator python-decorator 4.3.0-1.1 install ok installed python-dev python-dev 2.7.16-1 install ok installed python-functools32 python-functools32 3.2.3.2-3 install ok installed python-glade2 python-glade2 2.24.0-5.1+b1 install ok installed python-gobject-2 python-gobject-2 2.28.6-13+b1 install ok installed python-gtk2 python-gtk2 2.24.0-5.1+b1 install ok installed python-imaging python-imaging 4.0.0-4+deb9u1 install ok installed python-kiwisolver python-kiwisolver 1.0.1-2+b1 install ok installed python-matplotlib python-matplotlib 2.2.3-6 install ok installed python-matplotlib-data python-matplotlib-data 3.0.2-2 install ok installed python-matplotlib2-data python-matplotlib2-data 2.2.3-6 install ok installed python-minimal python-minimal 2.7.16-1 install ok installed python-numpy python-numpy 1:1.16.2-1 install ok installed python-olefile python-olefile 0.46-1 install ok installed python-pil:amd64 python-pil 5.4.1-2+deb10u3 install ok installed python-pkg-resources python-pkg-resources 40.8.0-1 install ok installed python-pyparsing python-pyparsing 2.2.0+dfsg1-2 install ok installed python-pysam python-pysam 0.15.2+ds-2 install ok installed python-renderpm:amd64 python-renderpm 3.5.13-1+deb10u1 install ok installed python-reportlab python-reportlab 3.5.13-1+deb10u1 install ok installed python-reportlab-accel:amd64 python-reportlab-accel 3.5.13-1+deb10u1 install ok installed python-scipy python-scipy 1.1.0-7 install ok installed python-six python-six 1.12.0-1 install ok installed python-subprocess32 python-subprocess32 3.5.3-1 install ok installed python-tk python-tk 2.7.16-2 install ok installed python-tz python-tz 2019.1-1 install ok installed python2 python2 2.7.16-1 install ok installed python2-dev python2-dev 2.7.16-1 install ok installed python2-minimal python2-minimal 2.7.16-1 install ok installed python2.7 python2.7 2.7.16-2+deb10u1 install ok installed python2.7-dev python2.7-dev 2.7.16-2+deb10u1 install ok installed python2.7-minimal python2.7-minimal 2.7.16-2+deb10u1 install ok installed readline-common readline-common 7.0-5 install ok installed rename rename 1.10-1 install ok installed sed sed 4.7-1 install ok installed sensible-utils sensible-utils 0.0.12 install ok installed seqan-apps seqan-apps 2.4.0+dfsg-11 install ok installed sgml-base sgml-base 1.29 install ok installed shared-mime-info shared-mime-info 1.10-1 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tk8.6-blt2.5 tk8.6-blt2.5 2.5.3+dfsg-4 install ok installed ttf-bitstream-vera ttf-bitstream-vera 1.10-8 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed ucf ucf 3.0038+nmu1 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed x11-common x11-common 1:7.7+19 install ok installed xdg-user-dirs xdg-user-dirs 0.17-2 install ok installed xml-core xml-core 0.18+nmu1 install ok installed xz-utils xz-utils 5.2.4-1+deb10u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 2m0.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m0.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie', 'bowtie2', 'bwa', 'bzip2', 'cpp', 'cpp-6', 'cpp-8', 'dbus', 'file', 'fontconfig', 'fontconfig-config', 'fonts-lyx', 'g++-', 'g++-6', 'g++-8', 'gcc', 'gcc-6', 'gcc-7-base:amd64', 'gcc-8', 'gnome-icon-theme', 'gsfonts', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'javascript-common', 'krb5-locales', 'libapparmor1:amd64', 'libart-2.0-2:amd64', 'libasan3:amd64', 'libasan5:amd64', 'libatk1.0-0:amd64', 'libatk1.0-data', 'libatomic1:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcilkrts5:amd64', 'libcroco3:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgail-common:amd64', 'libgail18:amd64', 'libgcc-6-dev:amd64', 'libgcc-8-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgdk-pixbuf2.0-0:amd64', 'libgdk-pixbuf2.0-bin', 'libgdk-pixbuf2.0-common', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libglade2-0:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-bin', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl15:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpc3:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-dev:amd64', 'libpython-stdlib:amd64', 'libpython2-dev:amd64', 'libpython2-stdlib:amd64', 'libpython2.7:amd64', 'libpython2.7-dev:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librsvg2-2:amd64', 'librsvg2-common:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libstdc++-6-dev:amd64', 'libstdc++-8-dev:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mime-support', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'publicsuffix', 'python', 'python-backports.functools-lru-cache', 'python-biopython', 'python-biopython-doc', 'python-cairo:amd64', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-dev', 'python-functools32', 'python-glade2', 'python-gobject-2', 'python-gtk2', 'python-imaging', 'python-kiwisolver', 'python-matplotlib', 'python-matplotlib-data', 'python-matplotlib2-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-pyparsing', 'python-pysam', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python-scipy', 'python-six', 'python-subprocess32', 'python-tk', 'python-tz', 'python2', 'python2-dev', 'python2-minimal', 'python2.7', 'python2.7-dev', 'python2.7-minimal', 'readline-common', 'rename', 'seqan-apps', 'sgml-base', 'shared-mime-info', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'x11-common', 'xdg-user-dirs', 'xml-core', 'xz-utils', 'gasic'] 2m4.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: binutils binutils-common binutils-x86-64-linux-gnu blt bowtie bowtie2 bwa bzip2 cpp cpp-6 cpp-8 dbus file fontconfig fontconfig-config fonts-lyx g++ g++-6 g++-8 gasic gcc gcc-6 gcc-7-base gcc-8 gnome-icon-theme gsfonts gtk-update-icon-cache hicolor-icon-theme javascript-common krb5-locales libapparmor1 libart-2.0-2 libasan3 libasan5 libatk1.0-0 libatk1.0-data libatomic1 libavahi-client3 libavahi-common-data libavahi-common3 libbinutils libblas-common libblas3 libbsd0 libc-dev-bin libc6-dev libcairo2 libcc1-0 libcilkrts5 libcroco3 libcups2 libcurl3-gnutls libdatrie1 libdbus-1-3 libdeflate0 libexpat1 libexpat1-dev libfontconfig1 libfreetype6 libfribidi0 libgail-common libgail18 libgcc-6-dev libgcc-8-dev libgdbm-compat4 libgdbm3 libgdbm6 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-bin libgdk-pixbuf2.0-common libgfortran3 libgfortran5 libglade2-0 libglib2.0-0 libglib2.0-data libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libharfbuzz0b libhts1 libhts2 libicu57 libicu63 libidn11 libimagequant0 libisl15 libisl19 libitm1 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblmdb0 liblsan0 libmagic-mgc libmagic1 libmbedcrypto3 libmbedtls12 libmbedx509-0 libmpc3 libmpfr4 libmpfr6 libmpx2 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libperl5.24 libperl5.28 libpixman-1-0 libpng16-16 libpsl5 libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librsvg2-2 librsvg2-common librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsqlite3-0 libssh2-1 libstdc++-6-dev libstdc++-8-dev libtbb2 libtcl8.6 libthai-data libthai0 libtiff5 libtk8.6 libtsan0 libubsan0 libubsan1 libunistring0 libwebp6 libwebpdemux2 libwebpmux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxss1 linux-libc-dev lsb-base manpages manpages-dev mime-support ncbi-blast+ ncbi-data netbase perl perl-modules-5.24 perl-modules-5.28 publicsuffix python python-backports.functools-lru-cache python-biopython python-biopython-doc python-cairo python-cycler python-dateutil python-decorator python-dev python-functools32 python-glade2 python-gobject-2 python-gtk2 python-imaging python-kiwisolver python-matplotlib python-matplotlib-data python-matplotlib2-data python-minimal python-numpy python-olefile python-pil python-pkg-resources python-pyparsing python-pysam python-renderpm python-reportlab python-reportlab-accel python-scipy python-six python-subprocess32 python-tk python-tz python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal readline-common rename seqan-apps sgml-base shared-mime-info tk8.6-blt2.5 ttf-bitstream-vera tzdata ucf x11-common xdg-user-dirs xml-core xz-utils 0 upgraded, 0 newly installed, 240 to remove and 0 not upgraded. After this operation, 953 MB disk space will be freed. (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 ... 33490 files and directories currently installed.) Removing g++-6 (6.3.0-18+deb9u1) ... Removing gcc-6 (6.3.0-18+deb9u1) ... Removing g++ (4:8.3.0-1) ... Removing python-tk (2.7.16-2) ... Removing blt (2.5.3+dfsg-4) ... Removing gasic (0.0.r19-4) ... Removing bowtie (1.2.2+dfsg-4) ... Removing bowtie2 (2.3.4.3-1) ... Removing bwa (0.7.17-3) ... Removing bzip2 (1.0.6-9.2~deb10u1) ... Removing gcc (4:8.3.0-1) ... Removing cpp (4:8.3.0-1) ... Removing cpp-6 (6.3.0-18+deb9u1) ... Removing dbus (1.12.20-0+deb10u1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing file (1:5.35-4+deb10u2) ... Removing python-glade2 (2.24.0-5.1+b1) ... Removing python-gtk2 (2.24.0-5.1+b1) ... Removing tk8.6-blt2.5 (2.5.3+dfsg-4) ... Removing libtk8.6:amd64 (8.6.9-2) ... Removing libxft2:amd64 (2.3.2-2) ... Removing libglade2-0:amd64 (1:2.6.4-2+b1) ... Removing python-matplotlib (2.2.3-6) ... Removing python-matplotlib2-data (2.2.3-6) ... Removing python-matplotlib-data (3.0.2-2) ... Removing fonts-lyx (2.3.2-1) ... dpkg: warning: while removing fonts-lyx, directory '/usr/share/fonts/truetype/lyx' not empty so not removed Removing g++-8 (8.3.0-6) ... Removing libstdc++-6-dev:amd64 (6.3.0-18+deb9u1) ... Removing libgcc-6-dev:amd64 (6.3.0-18+deb9u1) ... Removing libubsan0:amd64 (7.4.0-6) ... Removing libcilkrts5:amd64 (7.4.0-6) ... Removing gcc-7-base:amd64 (7.4.0-6) ... Removing python-renderpm:amd64 (3.5.13-1+deb10u1) ... Removing gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... Removing libgtk2.0-bin (2.24.32-3) ... Removing javascript-common (11) ... Removing krb5-locales (1.17-3+deb10u4) ... Removing libapparmor1:amd64 (2.13.2-10) ... Removing libart-2.0-2:amd64 (2.3.21-4) ... Removing libasan3:amd64 (6.3.0-18+deb9u1) ... Removing libstdc++-8-dev:amd64 (8.3.0-6) ... Removing libgail-common:amd64 (2.24.32-3) ... Removing libgail18:amd64 (2.24.32-3) ... Removing libtbb2:amd64 (2018~U6-4) ... Removing libblas-common (3.7.0-2) ... Removing python-scipy (1.1.0-7) ... Removing python-biopython (1.73+dfsg-1) ... Removing python-numpy (1:1.16.2-1) ... Removing liblapack3:amd64 (3.8.0-2) ... Removing libblas3:amd64 (3.8.0-2) ... Removing libxss1:amd64 (1:1.2.3-1) ... Removing python-cairo:amd64 (1.16.2-1+b1) ... Removing python-dev (2.7.16-1) ... Removing python2-dev (2.7.16-1) ... Removing python2.7-dev (2.7.16-2+deb10u1) ... Removing libpython-dev:amd64 (2.7.16-1) ... Removing libhts1:amd64 (1.3.2-2) ... Removing python-pysam (0.15.2+ds-2) ... Removing libhts2:amd64 (1.9-12~deb10u1) ... Removing libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Removing libdeflate0:amd64 (1.2-1) ... Removing python-subprocess32 (3.5.3-1) ... Removing python-imaging (4.0.0-4+deb9u1) ... Removing python-reportlab (3.5.13-1+deb10u1) ... Removing python-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Removing python-dateutil (2.7.3-3) ... Removing python-pil:amd64 (5.4.1-2+deb10u3) ... Removing rename (1.10-1) ... Removing ncbi-blast+ (2.8.1-1+deb10u1) ... Removing perl (5.28.1-6+deb10u1) ... Removing libperl5.28:amd64 (5.28.1-6+deb10u1) ... Removing libgdbm-compat4:amd64 (1.18.1-4) ... Removing libperl5.24:amd64 (5.24.1-3+deb9u7) ... Removing libgdbm3:amd64 (1.8.3-14) ... Removing libgdbm6:amd64 (1.18.1-4) ... Removing libgdk-pixbuf2.0-bin (2.38.1+dfsg-1) ... Removing libgfortran3:amd64 (6.3.0-18+deb9u1) ... Removing libgfortran5:amd64 (8.3.0-6) ... Removing python-gobject-2 (2.28.6-13+b1) ... Removing libglib2.0-data (2.58.3-2+deb10u3) ... Removing seqan-apps (2.4.0+dfsg-11) ... Removing libicu57:amd64 (57.1-6+deb9u4) ... Removing libidn11:amd64 (1.33-2.2) ... Removing libimagequant0:amd64 (2.12.2-1.1) ... Removing libisl15:amd64 (0.18-1) ... Removing libjs-jquery-ui (1.12.1+dfsg-5) ... Removing libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Removing liblcms2-2:amd64 (2.9-3) ... Removing libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Removing libldap-common (2.4.47+dfsg-3+deb10u7) ... Removing liblmdb0:amd64 (0.9.22-1) ... Removing libmagic1:amd64 (1:5.35-4+deb10u2) ... Removing libmagic-mgc (1:5.35-4+deb10u2) ... Removing libmbedtls12:amd64 (2.16.0-1) ... Removing libmbedx509-0:amd64 (2.16.0-1) ... Removing libmbedcrypto3:amd64 (2.16.0-1) ... Removing libmpfr4:amd64 (3.1.5-1) ... Removing libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Removing libpsl5:amd64 (0.20.2-2) ... Removing libpython2-dev:amd64 (2.7.16-1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Removing libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libssh2-1:amd64 (1.8.0-2.1) ... Removing libtcl8.6:amd64 (8.6.9+dfsg-2) ... Removing libunistring0:amd64 (0.9.6+really0.9.3-0.1) ... Removing libwebpmux2:amd64 (0.5.2-1) ... Removing libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Removing libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Removing x11-common (1:7.7+19) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing lsb-base (10.2019051400) ... Removing manpages-dev (4.16-2) ... Removing manpages (4.16-2) ... Removing ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Removing netbase (5.6) ... Removing perl-modules-5.24 (5.24.1-3+deb9u7) ... Removing perl-modules-5.28 (5.28.1-6+deb10u1) ... Removing publicsuffix (20220811.1734-0+deb10u1) ... Removing python-backports.functools-lru-cache (1.5-3) ... Removing python-biopython-doc (1.73+dfsg-1) ... Removing python-cycler (0.10.0-1) ... Removing python-decorator (4.3.0-1.1) ... Removing python-functools32 (3.2.3.2-3) ... Removing python-kiwisolver (1.0.1-2+b1) ... Removing python-olefile (0.46-1) ... Removing python-pkg-resources (40.8.0-1) ... Removing python-pyparsing (2.2.0+dfsg1-2) ... Removing python-tz (2019.1-1) ... Removing xml-core (0.18+nmu1) ... Removing sgml-base (1.29) ... Removing tzdata (2021a-0+deb10u6) ... Removing xdg-user-dirs (0.17-2) ... Removing xz-utils (5.2.4-1+deb10u1) ... Removing gcc-8 (8.3.0-6) ... Removing binutils (2.31.1-16) ... Removing binutils-x86-64-linux-gnu (2.31.1-16) ... Removing libbinutils:amd64 (2.31.1-16) ... Removing binutils-common:amd64 (2.31.1-16) ... Removing cpp-8 (8.3.0-6) ... Removing libgtk2.0-0:amd64 (2.24.32-3) ... Removing gnome-icon-theme (3.12.0-3) ... update-alternatives: using /usr/share/icons/gnome/scalable/places/gnome-foot.svg to provide /usr/share/icons/gnome/scalable/places/start-here.svg (start-here.svg) in auto mode update-alternatives: warning: skip creation of /usr/share/icons/gnome/256x256/places/start-here.png because associated file /usr/share/icons/gnome/256x256/places/gnome-foot.png (of link group start-here.svg) doesn't exist Removing librsvg2-common:amd64 (2.44.10-2.1+deb10u3) ... Removing librsvg2-2:amd64 (2.44.10-2.1+deb10u3) ... Removing libpangocairo-1.0-0:amd64 (1.42.4-8~deb10u1) ... Removing libpangoft2-1.0-0:amd64 (1.42.4-8~deb10u1) ... Removing gtk-update-icon-cache (3.24.5-1) ... Removing hicolor-icon-theme (0.17-2) ... Removing libgcc-8-dev:amd64 (8.3.0-6) ... Removing libasan5:amd64 (8.3.0-6) ... Removing libatk1.0-0:amd64 (2.30.0-2) ... Removing libatk1.0-data (2.30.0-2) ... Removing libatomic1:amd64 (8.3.0-6) ... Removing libcups2:amd64 (2.2.10-6+deb10u6) ... Removing libavahi-client3:amd64 (0.7-4+deb10u1) ... Removing libavahi-common3:amd64 (0.7-4+deb10u1) ... Removing libavahi-common-data:amd64 (0.7-4+deb10u1) ... Removing libxrandr2:amd64 (2:1.5.1-1) ... Removing libcairo2:amd64 (1.16.0-4+deb10u1) ... Removing libxcb-shm0:amd64 (1.13.1-2) ... Removing libpython2.7-dev:amd64 (2.7.16-2+deb10u1) ... Removing libexpat1-dev:amd64 (2.2.6-2+deb10u4) ... Removing libc6-dev:amd64 (2.28-10+deb10u1) ... Removing libc-dev-bin (2.28-10+deb10u1) ... Removing libcc1-0:amd64 (8.3.0-6) ... Removing libcroco3:amd64 (0.6.12-3) ... Removing libdbus-1-3:amd64 (1.12.20-0+deb10u1) ... Removing python-six (1.12.0-1) ... Removing python (2.7.16-1) ... Removing python2 (2.7.16-1) ... Removing python2.7 (2.7.16-2+deb10u1) ... Removing libpython2.7:amd64 (2.7.16-2+deb10u1) ... Removing libharfbuzz0b:amd64 (2.3.1-1) ... Removing libgdk-pixbuf2.0-0:amd64 (2.38.1+dfsg-1) ... Removing libgdk-pixbuf2.0-common (2.38.1+dfsg-1) ... Removing shared-mime-info (1.10-1) ... Removing libgomp1:amd64 (8.3.0-6) ... Removing libgraphite2-3:amd64 (1.3.13-7) ... Removing libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Removing libgtk2.0-common (2.24.32-3) ... Removing libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Removing libicu63:amd64 (63.1-6+deb10u3) ... Removing libisl19:amd64 (0.20-2) ... Removing libitm1:amd64 (8.3.0-6) ... Removing libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Removing libjbig0:amd64 (2.1-3.1+b2) ... Removing libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Removing libkrb5-3:amd64 (1.17-3+deb10u4) ... Removing libk5crypto3:amd64 (1.17-3+deb10u4) ... Removing libkrb5support0:amd64 (1.17-3+deb10u4) ... Removing libkeyutils1:amd64 (1.6-6) ... Removing liblsan0:amd64 (8.3.0-6) ... Removing libmpc3:amd64 (1.1.0-1) ... Removing libmpfr6:amd64 (4.0.2-1) ... Removing libmpx2:amd64 (8.3.0-6) ... Removing libpixman-1-0:amd64 (0.36.0-1) ... Removing libpython-stdlib:amd64 (2.7.16-1) ... Removing libpython2-stdlib:amd64 (2.7.16-1) ... Removing python-minimal (2.7.16-1) ... Removing python2-minimal (2.7.16-1) ... Removing python2.7-minimal (2.7.16-2+deb10u1) ... Removing libquadmath0:amd64 (8.3.0-6) ... Removing libtsan0:amd64 (8.3.0-6) ... Removing libubsan1:amd64 (8.3.0-6) ... Removing libwebp6:amd64 (0.6.1-2+deb10u1) ... Removing libxcb-render0:amd64 (1.13.1-2) ... Removing libxcomposite1:amd64 (1:0.4.4-2) ... Removing libxcursor1:amd64 (1:1.1.15-2) ... Removing libxdamage1:amd64 (1:1.1.4-3+b3) ... Removing libxinerama1:amd64 (2:1.1.4-2) ... Removing libxfixes3:amd64 (1:5.0.3-1) ... Removing libxi6:amd64 (2:1.7.9-1) ... Removing linux-libc-dev:amd64 (4.19.249-2) ... Removing libpango-1.0-0:amd64 (1.42.4-8~deb10u1) ... Removing fontconfig (2.13.1-2) ... Removing libfontconfig1:amd64 (2.13.1-2) ... Removing fontconfig-config (2.13.1-2) ... Removing libxrender1:amd64 (1:0.9.10-1) ... Removing libthai0:amd64 (0.1.28-2) ... Removing libdatrie1:amd64 (0.2.12-2) ... Removing libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Removing libexpat1:amd64 (2.2.6-2+deb10u4) ... Removing libfreetype6:amd64 (2.9.1-3+deb10u3) ... Removing libfribidi0:amd64 (1.0.5-3.1+deb10u2) ... Removing libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... Removing libpng16-16:amd64 (1.6.36-6) ... Removing libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... find: '/usr/lib/python2.7': No such file or directory Removing libreadline7:amd64 (7.0-5) ... Removing libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Removing libthai-data (0.1.28-2) ... Removing libxext6:amd64 (2:1.3.3-1+b2) ... Removing mime-support (3.62) ... Removing readline-common (7.0-5) ... Removing ttf-bitstream-vera (1.10-8) ... dpkg: warning: while removing ttf-bitstream-vera, directory '/usr/share/fonts/truetype/ttf-bitstream-vera' not empty so not removed Removing ucf (3.0038+nmu1) ... Removing libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Removing libxcb1:amd64 (1.13.1-2) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.9.1-2+deb10u1) ... Removing libx11-data (2:1.6.7-1+deb10u2) ... Removing libxau6:amd64 (1:1.0.8-1+b2) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 2m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie', 'bowtie2', 'bwa', 'bzip2', 'cpp', 'cpp-6', 'cpp-8', 'dbus', 'file', 'fontconfig', 'fontconfig-config', 'fonts-lyx', 'g++-', 'g++-6', 'g++-8', 'gcc', 'gcc-6', 'gcc-7-base:amd64', 'gcc-8', 'gnome-icon-theme', 'gsfonts', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'javascript-common', 'krb5-locales', 'libapparmor1:amd64', 'libart-2.0-2:amd64', 'libasan3:amd64', 'libasan5:amd64', 'libatk1.0-0:amd64', 'libatk1.0-data', 'libatomic1:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcilkrts5:amd64', 'libcroco3:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgail-common:amd64', 'libgail18:amd64', 'libgcc-6-dev:amd64', 'libgcc-8-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgdk-pixbuf2.0-0:amd64', 'libgdk-pixbuf2.0-bin', 'libgdk-pixbuf2.0-common', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libglade2-0:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-bin', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl15:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpc3:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-dev:amd64', 'libpython-stdlib:amd64', 'libpython2-dev:amd64', 'libpython2-stdlib:amd64', 'libpython2.7:amd64', 'libpython2.7-dev:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librsvg2-2:amd64', 'librsvg2-common:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libstdc++-6-dev:amd64', 'libstdc++-8-dev:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mime-support', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'publicsuffix', 'python', 'python-backports.functools-lru-cache', 'python-biopython', 'python-biopython-doc', 'python-cairo:amd64', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-dev', 'python-functools32', 'python-glade2', 'python-gobject-2', 'python-gtk2', 'python-imaging', 'python-kiwisolver', 'python-matplotlib', 'python-matplotlib-data', 'python-matplotlib2-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-pyparsing', 'python-pysam', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python-scipy', 'python-six', 'python-subprocess32', 'python-tk', 'python-tz', 'python2', 'python2-dev', 'python2-minimal', 'python2.7', 'python2.7-dev', 'python2.7-minimal', 'readline-common', 'rename', 'seqan-apps', 'sgml-base', 'shared-mime-info', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'x11-common', 'xdg-user-dirs', 'xml-core', 'xz-utils', 'gasic'] 2m4.0s INFO: Running scripts post_remove 2m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_remove_exceptions'] 2m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_remove_exceptions'] 2m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie', 'bowtie2', 'bwa', 'bzip2', 'cpp', 'cpp-6', 'cpp-8', 'dbus', 'file', 'fontconfig', 'fontconfig-config', 'fonts-lyx', 'g++', 'g++-6', 'g++-8', 'gcc', 'gcc-6', 'gcc-7-base:amd64', 'gcc-8', 'gnome-icon-theme', 'gsfonts', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'javascript-common', 'krb5-locales', 'libapparmor1:amd64', 'libart-2.0-2:amd64', 'libasan3:amd64', 'libasan5:amd64', 'libatk1.0-0:amd64', 'libatk1.0-data', 'libatomic1:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcilkrts5:amd64', 'libcroco3:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgail-common:amd64', 'libgail18:amd64', 'libgcc-6-dev:amd64', 'libgcc-8-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgdk-pixbuf2.0-0:amd64', 'libgdk-pixbuf2.0-bin', 'libgdk-pixbuf2.0-common', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libglade2-0:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-bin', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl15:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpc3:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-dev:amd64', 'libpython-stdlib:amd64', 'libpython2-dev:amd64', 'libpython2-stdlib:amd64', 'libpython2.7:amd64', 'libpython2.7-dev:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librsvg2-2:amd64', 'librsvg2-common:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libstdc++-6-dev:amd64', 'libstdc++-8-dev:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mime-support', 'ncbi-blast+', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'publicsuffix', 'python', 'python-backports.functools-lru-cache', 'python-biopython', 'python-biopython-doc', 'python-cairo:amd64', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-dev', 'python-functools32', 'python-glade2', 'python-gobject-2', 'python-gtk2', 'python-imaging', 'python-kiwisolver', 'python-matplotlib', 'python-matplotlib-data', 'python-matplotlib2-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-pyparsing', 'python-pysam', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python-scipy', 'python-six', 'python-subprocess32', 'python-tk', 'python-tz', 'python2', 'python2-dev', 'python2-minimal', 'python2.7', 'python2.7-dev', 'python2.7-minimal', 'readline-common', 'rename', 'seqan-apps', 'sgml-base', 'shared-mime-info', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'x11-common', 'xdg-user-dirs', 'xml-core', 'xz-utils'] 2m4.8s DUMP: dpkg: warning: ignoring request to remove binutils which isn't installed dpkg: warning: ignoring request to remove binutils-common which isn't installed dpkg: warning: ignoring request to remove binutils-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove blt which isn't installed dpkg: warning: ignoring request to remove bowtie which isn't installed dpkg: warning: ignoring request to remove bowtie2 which isn't installed dpkg: warning: ignoring request to remove bwa which isn't installed dpkg: warning: ignoring request to remove bzip2 which isn't installed dpkg: warning: ignoring request to remove cpp which isn't installed dpkg: warning: ignoring request to remove cpp-6 which isn't installed dpkg: warning: ignoring request to remove cpp-8 which isn't installed (Reading database ... 5084 files and directories currently installed.) Purging configuration files for dbus (1.12.20-0+deb10u1) ... rmdir: failed to remove '/var/run/dbus': No such file or directory dpkg: warning: ignoring request to remove file which isn't installed Purging configuration files for fontconfig (2.13.1-2) ... Purging configuration files for fontconfig-config (2.13.1-2) ... dpkg: warning: ignoring request to remove fonts-lyx which isn't installed dpkg: warning: ignoring request to remove g++ which isn't installed dpkg: warning: ignoring request to remove g++-6 which isn't installed dpkg: warning: ignoring request to remove g++-8 which isn't installed dpkg: warning: ignoring request to remove gcc which isn't installed dpkg: warning: ignoring request to remove gcc-6 which isn't installed dpkg: warning: ignoring request to remove gcc-7-base which isn't installed dpkg: warning: ignoring request to remove gcc-8 which isn't installed dpkg: warning: ignoring request to remove gnome-icon-theme which isn't installed Purging configuration files for gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... dpkg: warning: while removing gsfonts, directory '/usr/share/fonts/type1/gsfonts' not empty so not removed dpkg: warning: ignoring request to remove gtk-update-icon-cache which isn't installed dpkg: warning: ignoring request to remove hicolor-icon-theme which isn't installed Purging configuration files for javascript-common (11) ... dpkg: warning: ignoring request to remove krb5-locales which isn't installed dpkg: warning: ignoring request to remove libapparmor1 which isn't installed dpkg: warning: ignoring request to remove libart-2.0-2 which isn't installed dpkg: warning: ignoring request to remove libasan3 which isn't installed dpkg: warning: ignoring request to remove libasan5 which isn't installed dpkg: warning: ignoring request to remove libatk1.0-0 which isn't installed dpkg: warning: ignoring request to remove libatk1.0-data which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libavahi-client3 which isn't installed dpkg: warning: ignoring request to remove libavahi-common-data which isn't installed dpkg: warning: ignoring request to remove libavahi-common3 which isn't installed dpkg: warning: ignoring request to remove libbinutils which isn't installed dpkg: warning: ignoring request to remove libblas-common which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcc1-0 which isn't installed dpkg: warning: ignoring request to remove libcilkrts5 which isn't installed dpkg: warning: ignoring request to remove libcroco3 which isn't installed dpkg: warning: ignoring request to remove libcups2 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libexpat1-dev which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgail-common which isn't installed dpkg: warning: ignoring request to remove libgail18 which isn't installed dpkg: warning: ignoring request to remove libgcc-6-dev which isn't installed dpkg: warning: ignoring request to remove libgcc-8-dev which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm3 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed Purging configuration files for libgdk-pixbuf2.0-0:amd64 (2.38.1+dfsg-1) ... dpkg: warning: ignoring request to remove libgdk-pixbuf2.0-bin which isn't installed dpkg: warning: ignoring request to remove libgdk-pixbuf2.0-common which isn't installed dpkg: warning: ignoring request to remove libgfortran3 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libglade2-0 which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... dpkg: warning: ignoring request to remove libglib2.0-data which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Purging configuration files for libgtk2.0-0:amd64 (2.24.32-3) ... dpkg: warning: ignoring request to remove libgtk2.0-bin which isn't installed Purging configuration files for libgtk2.0-common (2.24.32-3) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts1 which isn't installed dpkg: warning: ignoring request to remove libhts2 which isn't installed dpkg: warning: ignoring request to remove libicu57 which isn't installed dpkg: warning: ignoring request to remove libicu63 which isn't installed dpkg: warning: ignoring request to remove libidn11 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libisl15 which isn't installed dpkg: warning: ignoring request to remove libisl19 which isn't installed dpkg: warning: ignoring request to remove libitm1 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjs-jquery which isn't installed Purging configuration files for libjs-jquery-ui (1.12.1+dfsg-5) ... dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 which isn't installed Purging configuration files for libldap-common (2.4.47+dfsg-3+deb10u7) ... dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove liblsan0 which isn't installed dpkg: warning: ignoring request to remove libmagic-mgc which isn't installed Purging configuration files for libmagic1:amd64 (1:5.35-4+deb10u2) ... dpkg: warning: ignoring request to remove libmbedcrypto3 which isn't installed dpkg: warning: ignoring request to remove libmbedtls12 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-0 which isn't installed dpkg: warning: ignoring request to remove libmpc3 which isn't installed dpkg: warning: ignoring request to remove libmpfr4 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed dpkg: warning: ignoring request to remove libmpx2 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libperl5.24 which isn't installed dpkg: warning: ignoring request to remove libperl5.28 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython-dev which isn't installed dpkg: warning: ignoring request to remove libpython-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython2-dev which isn't installed dpkg: warning: ignoring request to remove libpython2-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython2.7 which isn't installed dpkg: warning: ignoring request to remove libpython2.7-dev which isn't installed Purging configuration files for libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... dpkg: warning: ignoring request to remove libpython2.7-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline7 which isn't installed dpkg: warning: ignoring request to remove librsvg2-2 which isn't installed dpkg: warning: ignoring request to remove librsvg2-common which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed Purging configuration files for libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) ... dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libstdc++-6-dev which isn't installed dpkg: warning: ignoring request to remove libstdc++-8-dev which isn't installed dpkg: warning: ignoring request to remove libtbb2 which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libtsan0 which isn't installed dpkg: warning: ignoring request to remove libubsan0 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove libunistring0 which isn't installed dpkg: warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxcomposite1 which isn't installed dpkg: warning: ignoring request to remove libxcursor1 which isn't installed dpkg: warning: ignoring request to remove libxdamage1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxfixes3 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxi6 which isn't installed dpkg: warning: ignoring request to remove libxinerama1 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxrandr2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed dpkg: warning: ignoring request to remove lsb-base which isn't installed dpkg: warning: ignoring request to remove manpages which isn't installed dpkg: warning: ignoring request to remove manpages-dev which isn't installed Purging configuration files for mime-support (3.62) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Purging configuration files for netbase (5.6) ... Purging configuration files for perl (5.28.1-6+deb10u1) ... dpkg: warning: ignoring request to remove perl-modules-5.24 which isn't installed dpkg: warning: ignoring request to remove perl-modules-5.28 which isn't installed dpkg: warning: ignoring request to remove publicsuffix which isn't installed Purging configuration files for python (2.7.16-1) ... dpkg: warning: ignoring request to remove python-backports.functools-lru-cache which isn't installed dpkg: warning: ignoring request to remove python-biopython which isn't installed dpkg: warning: ignoring request to remove python-biopython-doc which isn't installed dpkg: warning: ignoring request to remove python-cairo which isn't installed dpkg: warning: ignoring request to remove python-cycler which isn't installed dpkg: warning: ignoring request to remove python-dateutil which isn't installed dpkg: warning: ignoring request to remove python-decorator which isn't installed dpkg: warning: ignoring request to remove python-dev which isn't installed dpkg: warning: ignoring request to remove python-functools32 which isn't installed dpkg: warning: ignoring request to remove python-glade2 which isn't installed dpkg: warning: ignoring request to remove python-gobject-2 which isn't installed dpkg: warning: ignoring request to remove python-gtk2 which isn't installed dpkg: warning: ignoring request to remove python-imaging which isn't installed dpkg: warning: ignoring request to remove python-kiwisolver which isn't installed dpkg: warning: ignoring request to remove python-matplotlib which isn't installed Purging configuration files for python-matplotlib-data (3.0.2-2) ... Purging configuration files for python-matplotlib2-data (2.2.3-6) ... dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-numpy which isn't installed dpkg: warning: ignoring request to remove python-olefile which isn't installed dpkg: warning: ignoring request to remove python-pil which isn't installed dpkg: warning: ignoring request to remove python-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python-pyparsing which isn't installed dpkg: warning: ignoring request to remove python-pysam which isn't installed dpkg: warning: ignoring request to remove python-renderpm which isn't installed dpkg: warning: ignoring request to remove python-reportlab which isn't installed dpkg: warning: ignoring request to remove python-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python-scipy which isn't installed dpkg: warning: ignoring request to remove python-six which isn't installed dpkg: warning: ignoring request to remove python-subprocess32 which isn't installed dpkg: warning: ignoring request to remove python-tk which isn't installed dpkg: warning: ignoring request to remove python-tz which isn't installed dpkg: warning: ignoring request to remove python2 which isn't installed dpkg: warning: ignoring request to remove python2-dev which isn't installed dpkg: warning: ignoring request to remove python2-minimal which isn't installed dpkg: warning: ignoring request to remove python2.7 which isn't installed dpkg: warning: ignoring request to remove python2.7-dev which isn't installed Purging configuration files for python2.7-minimal (2.7.16-2+deb10u1) ... Purging configuration files for readline-common (7.0-5) ... dpkg: warning: ignoring request to remove rename which isn't installed dpkg: warning: ignoring request to remove seqan-apps which isn't installed Purging configuration files for sgml-base (1.29) ... Purging configuration files for shared-mime-info (1.10-1) ... dpkg: warning: ignoring request to remove tk8.6-blt2.5 which isn't installed dpkg: warning: ignoring request to remove ttf-bitstream-vera which isn't installed Purging configuration files for tzdata (2021a-0+deb10u6) ... Purging configuration files for ucf (3.0038+nmu1) ... Purging configuration files for x11-common (1:7.7+19) ... Purging configuration files for xdg-user-dirs (0.17-2) ... Purging configuration files for xml-core (0.18+nmu1) ... dpkg: warning: ignoring request to remove xz-utils which isn't installed 2m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie', 'bowtie2', 'bwa', 'bzip2', 'cpp', 'cpp-6', 'cpp-8', 'dbus', 'file', 'fontconfig', 'fontconfig-config', 'fonts-lyx', 'g++', 'g++-6', 'g++-8', 'gcc', 'gcc-6', 'gcc-7-base:amd64', 'gcc-8', 'gnome-icon-theme', 'gsfonts', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'javascript-common', 'krb5-locales', 'libapparmor1:amd64', 'libart-2.0-2:amd64', 'libasan3:amd64', 'libasan5:amd64', 'libatk1.0-0:amd64', 'libatk1.0-data', 'libatomic1:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcilkrts5:amd64', 'libcroco3:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgail-common:amd64', 'libgail18:amd64', 'libgcc-6-dev:amd64', 'libgcc-8-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgdk-pixbuf2.0-0:amd64', 'libgdk-pixbuf2.0-bin', 'libgdk-pixbuf2.0-common', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libglade2-0:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-bin', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl15:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpc3:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-dev:amd64', 'libpython-stdlib:amd64', 'libpython2-dev:amd64', 'libpython2-stdlib:amd64', 'libpython2.7:amd64', 'libpython2.7-dev:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librsvg2-2:amd64', 'librsvg2-common:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libstdc++-6-dev:amd64', 'libstdc++-8-dev:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mime-support', 'ncbi-blast+', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'publicsuffix', 'python', 'python-backports.functools-lru-cache', 'python-biopython', 'python-biopython-doc', 'python-cairo:amd64', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-dev', 'python-functools32', 'python-glade2', 'python-gobject-2', 'python-gtk2', 'python-imaging', 'python-kiwisolver', 'python-matplotlib', 'python-matplotlib-data', 'python-matplotlib2-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-pyparsing', 'python-pysam', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python-scipy', 'python-six', 'python-subprocess32', 'python-tk', 'python-tz', 'python2', 'python2-dev', 'python2-minimal', 'python2.7', 'python2.7-dev', 'python2.7-minimal', 'readline-common', 'rename', 'seqan-apps', 'sgml-base', 'shared-mime-info', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'x11-common', 'xdg-user-dirs', 'xml-core', 'xz-utils'] 2m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg', '--purge', 'gasic'] 2m4.8s DUMP: dpkg: warning: ignoring request to remove gasic which isn't installed 2m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg', '--purge', 'gasic'] 2m4.8s INFO: Running scripts post_purge 2m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_purge_exceptions'] 2m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_purge_exceptions'] 2m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg', '--purge', '--pending'] 2m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg', '--purge', '--pending'] 2m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg', '--remove', '--pending'] 2m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg', '--remove', '--pending'] 2m4.8s INFO: Running scripts post_test 2m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_test_exceptions'] 2m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'tmp/scripts/post_test_exceptions'] 2m4.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 2m5.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 2m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg-divert', '--list'] 2m5.3s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 2m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'dpkg-divert', '--list'] 2m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', 'clean'] 2m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n', 'apt-get', 'clean'] 2m5.3s DEBUG: Recording chroot state 2m5.8s INFO: Warning: Package purging left files on system: /etc/ca-certificates.conf.dpkg-old not owned /usr/local/share/fonts/ not owned /usr/local/share/fonts/.uuid not owned /usr/share/fonts/ owned by: gsfonts, fonts-lyx, ttf-bitstream-vera /usr/share/fonts/.uuid not owned /usr/share/fonts/truetype/ owned by: fonts-lyx, ttf-bitstream-vera /usr/share/fonts/truetype/.uuid not owned /usr/share/fonts/truetype/lyx/ owned by: fonts-lyx /usr/share/fonts/truetype/lyx/.uuid not owned /usr/share/fonts/truetype/ttf-bitstream-vera/ owned by: ttf-bitstream-vera /usr/share/fonts/truetype/ttf-bitstream-vera/.uuid not owned /usr/share/fonts/type1/ owned by: gsfonts /usr/share/fonts/type1/.uuid not owned /usr/share/fonts/type1/gsfonts/ owned by: gsfonts /usr/share/fonts/type1/gsfonts/.uuid not owned 2m6.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/shm'] 2m6.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/shm'] 2m6.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/console'] 2m6.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/console'] 2m6.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/ptmx'] 2m6.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/ptmx'] 2m6.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/pts'] 2m6.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/dev/pts'] 2m6.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/proc'] 2m6.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n/proc'] 2m6.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 2m6.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpfq5o9w1n'] 2m6.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpfq5o9w1n 2m6.3s INFO: PASS: Upgrading between Debian distributions. 2m6.3s INFO: PASS: All tests. 2m6.3s INFO: piuparts run ends. ret=0 End: 2022-11-30 17:35:35 GMT