Start: 2024-01-06 20:23:04 GMT Package: sga Version: 0.10.15-4 Installed-Size: 2875 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.1, libc6 (>= 2.23), libgcc1 (>= 1:3.0), libgomp1 (>= 4.9), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), samtools, python, python-ruffus, python-pysam Recommends: abyss (>= 2.0.2-1) Description: de novo genome assembler that uses string graphs Homepage: https://github.com/jts/sga Description-md5: 4551d08cc0a7516892fb0af250b69e37 Section: science Priority: optional Filename: pool/main/s/sga/sga_0.10.15-4_amd64.deb Size: 977296 MD5sum: 5c21a766974cef7efb5b76322b0d9f17 SHA256: e2b73ead921fa37a558b8958cad032946d5a07ba04c08f19b35034be2e5e54f1 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz -d buster --no-upgrade-test --apt sga=0.10.15-4 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 1.2 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz -d buster --no-upgrade-test --apt sga=0.10.15-4 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-27-amd64 #1 SMP Debian 5.10.205-2 (2023-12-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpdtm15zls 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpdtm15zls 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz'] 0m2.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz'] 0m2.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/proc'] 0m2.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/proc'] 0m2.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/pts'] 0m2.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/pts'] 0m2.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/ptmx'] 0m2.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/ptmx'] 0m2.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/8', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/console'] 0m2.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/8', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/console'] 0m2.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/shm'] 0m2.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/shm'] 0m2.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m2.3s DEBUG: Created policy-rc.d and chmodded it. 0m2.3s DEBUG: Created resolv.conf. 0m2.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts-log-alternatives to /srv/piuparts.debian.org/tmp/tmpdtm15zls/tmp/scripts/ 0m2.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpdtm15zls/tmp/scripts/ 0m2.3s INFO: Running scripts post_chroot_unpack 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', 'update'] 0m3.2s DUMP: Hit:1 http://deb.debian.org/debian buster InRelease Reading package lists... 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', 'update'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.7s DUMP: f6fc0f2636004ef589309651dfd778f4 - 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.7s INFO: Running scripts post_setup 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_dummy_users'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_dummy_users'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_forbid_home'] 0m4.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_forbid_home'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.7s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_minimize'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_minimize'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_zz_backports'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_setup_zz_backports'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', 'clean'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', 'clean'] 0m4.7s DEBUG: Recording chroot state 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s 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 bsdutils bsdutils 1:2.33.1-0.1 install ok installed coreutils coreutils 8.30-3 install ok installed dash dash 0.5.10.2-5 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 e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 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 libblkid1:amd64 libblkid1 2.33.1-0.1 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 libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 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 libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 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 libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 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 libmount1:amd64 libmount1 2.33.1-0.1 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 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 libpcre3:amd64 libpcre3 2:8.39-12 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 libss2:amd64 libss2 1.44.5-1+deb10u3 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 libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed login login 1:4.5-1.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.33.1-0.1 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 passwd passwd 1:4.5-1.1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg-divert', '--list'] 0m5.2s 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 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg-divert', '--list'] 0m5.2s INFO: Running scripts is_testable 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/is_testable_uninstallable'] 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/is_testable_uninstallable'] 0m5.2s INFO: apt-cache does not know about any of the requested packages 0m5.2s INFO: Running scripts pre_test 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_test_exceptions'] 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_test_exceptions'] 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_test_root_password'] 0m5.2s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_test_root_password'] 0m5.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m5.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m6.2s DEBUG: No broken symlinks as far as we can find. 0m6.2s INFO: Running scripts pre_install 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_database-server'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_database-server'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_exceptions'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_exceptions'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_extras'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_extras'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_log_alternatives'] 0m6.3s DUMP: Adding 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' dpkg-divert: warning: diverting file '/usr/bin/update-alternatives' from an Essential package with rename is dangerous, use --no-rename 0m6.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_install_log_alternatives'] 0m6.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m6.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m7.1s DEBUG: No broken symlinks as far as we can find. 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-cache', 'policy'] 0m7.7s 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=oldoldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-cache', 'policy'] 0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-cache', 'policy', 'sga'] 0m7.8s DUMP: sga: Installed: (none) Candidate: 0.10.15-4 Version table: 0.10.15-4 500 500 http://deb.debian.org/debian buster/main amd64 Packages 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-cache', 'policy', 'sga'] 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', '-y', 'install', 'sga=0.10.15-4'] 0m17.9s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: fontconfig fontconfig-config fonts-dejavu-core graphviz libbamtools2.5.1 libbsd0 libcairo2 libcdt5 libcgraph6 libcurl3-gnutls libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgd3 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhts2 libice6 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblab-gamut1 libldap-2.4-2 libldap-common libltdl7 libncurses6 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpixman-1-0 libpng16-16 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsqlite3-0 libssh2-1 libssl1.1 libthai-data libthai0 libtiff5 libwebp6 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxdot4 libxext6 libxmu6 libxpm4 libxrender1 libxt6 lsb-base mime-support python python-minimal python-pysam python-ruffus python2 python2-minimal python2.7 python2.7-minimal readline-common samtools sensible-utils ucf x11-common Suggested packages: gsfonts graphviz-doc libgd-tools krb5-doc krb5-user python-doc python-tk python-drmaa python2-doc python2.7-doc binutils binfmt-support readline-doc Recommended packages: fonts-liberation ca-certificates libglib2.0-data shared-mime-info xdg-user-dirs libgts-bin krb5-locales libgpm2 publicsuffix libsasl2-modules bzip2 file xz-utils cwltool abyss The following NEW packages will be installed: fontconfig fontconfig-config fonts-dejavu-core graphviz libbamtools2.5.1 libbsd0 libcairo2 libcdt5 libcgraph6 libcurl3-gnutls libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgd3 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhts2 libice6 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblab-gamut1 libldap-2.4-2 libldap-common libltdl7 libncurses6 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpixman-1-0 libpng16-16 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsqlite3-0 libssh2-1 libssl1.1 libthai-data libthai0 libtiff5 libwebp6 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxdot4 libxext6 libxmu6 libxpm4 libxrender1 libxt6 lsb-base mime-support python python-minimal python-pysam python-ruffus python2 python2-minimal python2.7 python2.7-minimal readline-common samtools sensible-utils sga ucf x11-common 0 upgraded, 92 newly installed, 0 to remove and 0 not upgraded. Need to get 25.6 MB of archives. After this operation, 74.6 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get:2 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get:3 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get:4 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get:5 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u3 [1551 kB] Get:6 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get:7 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u4 [108 kB] Get:8 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get:9 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:10 http://deb.debian.org/debian buster/main amd64 libsqlite3-0 amd64 3.27.2-3+deb10u1 [641 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get:12 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get:13 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get:14 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get:15 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get:16 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get:17 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:18 http://deb.debian.org/debian buster/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libpng16-16 amd64 1.6.36-6 [292 kB] Get:20 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u3 [380 kB] Get:21 http://deb.debian.org/debian buster/main amd64 fonts-dejavu-core all 2.37-1 [1068 kB] Get:22 http://deb.debian.org/debian buster/main amd64 fontconfig-config all 2.13.1-2 [280 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libfontconfig1 amd64 2.13.1-2 [346 kB] Get:24 http://deb.debian.org/debian buster/main amd64 fontconfig amd64 2.13.1-2 [405 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libpixman-1-0 amd64 0.36.0-1 [537 kB] Get:26 http://deb.debian.org/debian buster/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9 kB] Get:27 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get:28 http://deb.debian.org/debian buster/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:29 http://deb.debian.org/debian buster/main amd64 libxcb1 amd64 1.13.1-2 [137 kB] Get:30 http://deb.debian.org/debian buster/main amd64 libx11-data all 2:1.6.7-1+deb10u2 [299 kB] Get:31 http://deb.debian.org/debian buster/main amd64 libx11-6 amd64 2:1.6.7-1+deb10u2 [757 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libxcb-render0 amd64 1.13.1-2 [109 kB] Get:33 http://deb.debian.org/debian buster/main amd64 libxcb-shm0 amd64 1.13.1-2 [99.2 kB] Get:34 http://deb.debian.org/debian buster/main amd64 libxext6 amd64 2:1.3.3-1+b2 [52.5 kB] Get:35 http://deb.debian.org/debian buster/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:36 http://deb.debian.org/debian buster/main amd64 libcairo2 amd64 1.16.0-4+deb10u1 [688 kB] Get:37 http://deb.debian.org/debian buster/main amd64 libcdt5 amd64 2.40.1-6+deb10u1 [60.7 kB] Get:38 http://deb.debian.org/debian buster/main amd64 libcgraph6 amd64 2.40.1-6+deb10u1 [84.2 kB] Get:39 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get:40 http://deb.debian.org/debian buster/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:41 http://deb.debian.org/debian buster/main amd64 libwebp6 amd64 0.6.1-2+deb10u1 [261 kB] Get:42 http://deb.debian.org/debian buster/main amd64 libtiff5 amd64 4.1.0+git191117-2~deb10u4 [271 kB] Get:43 http://deb.debian.org/debian buster/main amd64 libxpm4 amd64 1:3.5.12-1 [49.1 kB] Get:44 http://deb.debian.org/debian buster/main amd64 libgd3 amd64 2.2.5-5.2 [136 kB] Get:45 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get:46 http://deb.debian.org/debian buster/main amd64 libgts-0.7-5 amd64 0.7.6+darcs121130-4 [158 kB] Get:47 http://deb.debian.org/debian buster/main amd64 libltdl7 amd64 2.4.6-9 [390 kB] Get:48 http://deb.debian.org/debian buster/main amd64 libfribidi0 amd64 1.0.5-3.1+deb10u2 [63.9 kB] Get:49 http://deb.debian.org/debian buster/main amd64 libthai-data all 0.1.28-2 [170 kB] Get:50 http://deb.debian.org/debian buster/main amd64 libdatrie1 amd64 0.2.12-2 [39.3 kB] Get:51 http://deb.debian.org/debian buster/main amd64 libthai0 amd64 0.1.28-2 [54.1 kB] Get:52 http://deb.debian.org/debian buster/main amd64 libpango-1.0-0 amd64 1.42.4-8~deb10u1 [186 kB] Get:53 http://deb.debian.org/debian buster/main amd64 libgraphite2-3 amd64 1.3.13-7 [80.7 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libharfbuzz0b amd64 2.3.1-1 [1187 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libpangoft2-1.0-0 amd64 1.42.4-8~deb10u1 [68.3 kB] Get:56 http://deb.debian.org/debian buster/main amd64 libpangocairo-1.0-0 amd64 1.42.4-8~deb10u1 [55.7 kB] Get:57 http://deb.debian.org/debian buster/main amd64 libpathplan4 amd64 2.40.1-6+deb10u1 [63.6 kB] Get:58 http://deb.debian.org/debian buster/main amd64 libxdot4 amd64 2.40.1-6+deb10u1 [57.0 kB] Get:59 http://deb.debian.org/debian buster/main amd64 libgvc6 amd64 2.40.1-6+deb10u1 [646 kB] Get:60 http://deb.debian.org/debian buster/main amd64 libgvpr2 amd64 2.40.1-6+deb10u1 [213 kB] Get:61 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get:62 http://deb.debian.org/debian buster/main amd64 x11-common all 1:7.7+19 [251 kB] Get:63 http://deb.debian.org/debian buster/main amd64 libice6 amd64 2:1.0.9-2 [58.7 kB] Get:64 http://deb.debian.org/debian buster/main amd64 liblab-gamut1 amd64 2.40.1-6+deb10u1 [220 kB] Get:65 http://deb.debian.org/debian buster/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:66 http://deb.debian.org/debian buster/main amd64 libxt6 amd64 1:1.1.5-1+b3 [190 kB] Get:67 http://deb.debian.org/debian buster/main amd64 libxmu6 amd64 2:1.1.2-2+b3 [60.8 kB] Get:68 http://deb.debian.org/debian buster/main amd64 libxaw7 amd64 2:1.0.13-1+b2 [201 kB] Get:69 http://deb.debian.org/debian buster/main amd64 graphviz amd64 2.40.1-6+deb10u1 [596 kB] Get:70 http://deb.debian.org/debian buster/main amd64 libbamtools2.5.1 amd64 2.5.1+dfsg-3 [154 kB] Get:71 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:72 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u4 [65.9 kB] Get:73 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u4 [122 kB] Get:74 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u4 [369 kB] Get:75 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u4 [158 kB] Get:76 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u2 [69.2 kB] Get:77 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u2 [106 kB] Get:78 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u7 [90.1 kB] Get:79 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u7 [224 kB] Get:80 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get:81 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:82 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get:83 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:84 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] Get:85 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] Get:86 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:87 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-12~deb10u1 [305 kB] Get:88 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get:89 http://deb.debian.org/debian buster/main amd64 python-pysam amd64 0.15.2+ds-2 [1629 kB] Get:90 http://deb.debian.org/debian buster/main amd64 python-ruffus all 2.8.1-4 [152 kB] Get:91 http://deb.debian.org/debian buster/main amd64 samtools amd64 1.9-4 [443 kB] Get:92 http://deb.debian.org/debian buster/main amd64 sga amd64 0.10.15-4 [977 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 25.6 MB in 1s (22.0 MB/s) Selecting previously unselected package libpython2.7-minimal: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 ... 6463 files and directories currently installed.) Preparing to unpack .../00-libpython2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../01-python2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7-minimal (2.7.16-2+deb10u1) ... Selecting previously unselected package python2-minimal. Preparing to unpack .../02-python2-minimal_2.7.16-1_amd64.deb ... Unpacking python2-minimal (2.7.16-1) ... Selecting previously unselected package python-minimal. Preparing to unpack .../03-python-minimal_2.7.16-1_amd64.deb ... Unpacking python-minimal (2.7.16-1) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../04-libssl1.1_1.1.1n-0+deb10u3_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1n-0+deb10u3) ... Selecting previously unselected package mime-support. Preparing to unpack .../05-mime-support_3.62_all.deb ... Unpacking mime-support (3.62) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../06-libexpat1_2.2.6-2+deb10u4_amd64.deb ... Unpacking libexpat1:amd64 (2.2.6-2+deb10u4) ... Selecting previously unselected package readline-common. Preparing to unpack .../07-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../08-libreadline7_7.0-5_amd64.deb ... Unpacking libreadline7:amd64 (7.0-5) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../09-libsqlite3-0_3.27.2-3+deb10u1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Selecting previously unselected package libpython2.7-stdlib:amd64. Preparing to unpack .../10-libpython2.7-stdlib_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7. Preparing to unpack .../11-python2.7_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7 (2.7.16-2+deb10u1) ... Selecting previously unselected package libpython2-stdlib:amd64. Preparing to unpack .../12-libpython2-stdlib_2.7.16-1_amd64.deb ... Unpacking libpython2-stdlib:amd64 (2.7.16-1) ... Selecting previously unselected package libpython-stdlib:amd64. Preparing to unpack .../13-libpython-stdlib_2.7.16-1_amd64.deb ... Unpacking libpython-stdlib:amd64 (2.7.16-1) ... Setting up libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Setting up python2.7-minimal (2.7.16-2+deb10u1) ... Setting up python2-minimal (2.7.16-1) ... Selecting previously unselected package python2. (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 ... 7300 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_amd64.deb ... Unpacking python2 (2.7.16-1) ... Setting up python-minimal (2.7.16-1) ... 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 ... 7333 files and directories currently installed.) Preparing to unpack .../00-python_2.7.16-1_amd64.deb ... Unpacking python (2.7.16-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package ucf. Preparing to unpack .../02-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../03-libpng16-16_1.6.36-6_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.36-6) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../04-libfreetype6_2.9.1-3+deb10u3_amd64.deb ... Unpacking libfreetype6:amd64 (2.9.1-3+deb10u3) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../05-fonts-dejavu-core_2.37-1_all.deb ... Unpacking fonts-dejavu-core (2.37-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../06-fontconfig-config_2.13.1-2_all.deb ... Unpacking fontconfig-config (2.13.1-2) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../07-libfontconfig1_2.13.1-2_amd64.deb ... Unpacking libfontconfig1:amd64 (2.13.1-2) ... Selecting previously unselected package fontconfig. Preparing to unpack .../08-fontconfig_2.13.1-2_amd64.deb ... Unpacking fontconfig (2.13.1-2) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../09-libpixman-1-0_0.36.0-1_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.36.0-1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../10-libxau6_1%3a1.0.8-1+b2_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.8-1+b2) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../11-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../12-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../13-libxcb1_1.13.1-2_amd64.deb ... Unpacking libxcb1:amd64 (1.13.1-2) ... Selecting previously unselected package libx11-data. Preparing to unpack .../14-libx11-data_2%3a1.6.7-1+deb10u2_all.deb ... Unpacking libx11-data (2:1.6.7-1+deb10u2) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../15-libx11-6_2%3a1.6.7-1+deb10u2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../16-libxcb-render0_1.13.1-2_amd64.deb ... Unpacking libxcb-render0:amd64 (1.13.1-2) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../17-libxcb-shm0_1.13.1-2_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.13.1-2) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../18-libxext6_2%3a1.3.3-1+b2_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.3-1+b2) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../19-libxrender1_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../20-libcairo2_1.16.0-4+deb10u1_amd64.deb ... Unpacking libcairo2:amd64 (1.16.0-4+deb10u1) ... Selecting previously unselected package libcdt5. Preparing to unpack .../21-libcdt5_2.40.1-6+deb10u1_amd64.deb ... Unpacking libcdt5 (2.40.1-6+deb10u1) ... Selecting previously unselected package libcgraph6. Preparing to unpack .../22-libcgraph6_2.40.1-6+deb10u1_amd64.deb ... Unpacking libcgraph6 (2.40.1-6+deb10u1) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../23-libjpeg62-turbo_1%3a1.5.2-2+deb10u1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../24-libjbig0_2.1-3.1+b2_amd64.deb ... Unpacking libjbig0:amd64 (2.1-3.1+b2) ... Selecting previously unselected package libwebp6:amd64. Preparing to unpack .../25-libwebp6_0.6.1-2+deb10u1_amd64.deb ... Unpacking libwebp6:amd64 (0.6.1-2+deb10u1) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../26-libtiff5_4.1.0+git191117-2~deb10u4_amd64.deb ... Unpacking libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Selecting previously unselected package libxpm4:amd64. Preparing to unpack .../27-libxpm4_1%3a3.5.12-1_amd64.deb ... Unpacking libxpm4:amd64 (1:3.5.12-1) ... Selecting previously unselected package libgd3:amd64. Preparing to unpack .../28-libgd3_2.2.5-5.2_amd64.deb ... Unpacking libgd3:amd64 (2.2.5-5.2) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../29-libglib2.0-0_2.58.3-2+deb10u3_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... Selecting previously unselected package libgts-0.7-5:amd64. Preparing to unpack .../30-libgts-0.7-5_0.7.6+darcs121130-4_amd64.deb ... Unpacking libgts-0.7-5:amd64 (0.7.6+darcs121130-4) ... Selecting previously unselected package libltdl7:amd64. Preparing to unpack .../31-libltdl7_2.4.6-9_amd64.deb ... Unpacking libltdl7:amd64 (2.4.6-9) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../32-libfribidi0_1.0.5-3.1+deb10u2_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.5-3.1+deb10u2) ... Selecting previously unselected package libthai-data. Preparing to unpack .../33-libthai-data_0.1.28-2_all.deb ... Unpacking libthai-data (0.1.28-2) ... Selecting previously unselected package libdatrie1:amd64. Preparing to unpack .../34-libdatrie1_0.2.12-2_amd64.deb ... Unpacking libdatrie1:amd64 (0.2.12-2) ... Selecting previously unselected package libthai0:amd64. Preparing to unpack .../35-libthai0_0.1.28-2_amd64.deb ... Unpacking libthai0:amd64 (0.1.28-2) ... Selecting previously unselected package libpango-1.0-0:amd64. Preparing to unpack .../36-libpango-1.0-0_1.42.4-8~deb10u1_amd64.deb ... Unpacking libpango-1.0-0:amd64 (1.42.4-8~deb10u1) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../37-libgraphite2-3_1.3.13-7_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.13-7) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../38-libharfbuzz0b_2.3.1-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (2.3.1-1) ... Selecting previously unselected package libpangoft2-1.0-0:amd64. Preparing to unpack .../39-libpangoft2-1.0-0_1.42.4-8~deb10u1_amd64.deb ... Unpacking libpangoft2-1.0-0:amd64 (1.42.4-8~deb10u1) ... Selecting previously unselected package libpangocairo-1.0-0:amd64. Preparing to unpack .../40-libpangocairo-1.0-0_1.42.4-8~deb10u1_amd64.deb ... Unpacking libpangocairo-1.0-0:amd64 (1.42.4-8~deb10u1) ... Selecting previously unselected package libpathplan4. Preparing to unpack .../41-libpathplan4_2.40.1-6+deb10u1_amd64.deb ... Unpacking libpathplan4 (2.40.1-6+deb10u1) ... Selecting previously unselected package libxdot4. Preparing to unpack .../42-libxdot4_2.40.1-6+deb10u1_amd64.deb ... Unpacking libxdot4 (2.40.1-6+deb10u1) ... Selecting previously unselected package libgvc6. Preparing to unpack .../43-libgvc6_2.40.1-6+deb10u1_amd64.deb ... Unpacking libgvc6 (2.40.1-6+deb10u1) ... Selecting previously unselected package libgvpr2. Preparing to unpack .../44-libgvpr2_2.40.1-6+deb10u1_amd64.deb ... Unpacking libgvpr2 (2.40.1-6+deb10u1) ... Selecting previously unselected package lsb-base. Preparing to unpack .../45-lsb-base_10.2019051400_all.deb ... Unpacking lsb-base (10.2019051400) ... Selecting previously unselected package x11-common. Preparing to unpack .../46-x11-common_1%3a7.7+19_all.deb ... Unpacking x11-common (1:7.7+19) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../47-libice6_2%3a1.0.9-2_amd64.deb ... Unpacking libice6:amd64 (2:1.0.9-2) ... Selecting previously unselected package liblab-gamut1. Preparing to unpack .../48-liblab-gamut1_2.40.1-6+deb10u1_amd64.deb ... Unpacking liblab-gamut1 (2.40.1-6+deb10u1) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../49-libsm6_2%3a1.2.3-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.3-1) ... Selecting previously unselected package libxt6:amd64. Preparing to unpack .../50-libxt6_1%3a1.1.5-1+b3_amd64.deb ... Unpacking libxt6:amd64 (1:1.1.5-1+b3) ... Selecting previously unselected package libxmu6:amd64. Preparing to unpack .../51-libxmu6_2%3a1.1.2-2+b3_amd64.deb ... Unpacking libxmu6:amd64 (2:1.1.2-2+b3) ... Selecting previously unselected package libxaw7:amd64. Preparing to unpack .../52-libxaw7_2%3a1.0.13-1+b2_amd64.deb ... Unpacking libxaw7:amd64 (2:1.0.13-1+b2) ... Selecting previously unselected package graphviz. Preparing to unpack .../53-graphviz_2.40.1-6+deb10u1_amd64.deb ... Unpacking graphviz (2.40.1-6+deb10u1) ... Selecting previously unselected package libbamtools2.5.1:amd64. Preparing to unpack .../54-libbamtools2.5.1_2.5.1+dfsg-3_amd64.deb ... Unpacking libbamtools2.5.1:amd64 (2.5.1+dfsg-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../55-libkeyutils1_1.6-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6-6) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../56-libkrb5support0_1.17-3+deb10u4_amd64.deb ... Unpacking libkrb5support0:amd64 (1.17-3+deb10u4) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../57-libk5crypto3_1.17-3+deb10u4_amd64.deb ... Unpacking libk5crypto3:amd64 (1.17-3+deb10u4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../58-libkrb5-3_1.17-3+deb10u4_amd64.deb ... Unpacking libkrb5-3:amd64 (1.17-3+deb10u4) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../59-libgssapi-krb5-2_1.17-3+deb10u4_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../60-libsasl2-modules-db_2.1.27+dfsg-1+deb10u2_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../61-libsasl2-2_2.1.27+dfsg-1+deb10u2_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Selecting previously unselected package libldap-common. Preparing to unpack .../62-libldap-common_2.4.47+dfsg-3+deb10u7_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3+deb10u7) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../63-libldap-2.4-2_2.4.47+dfsg-3+deb10u7_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../64-libnghttp2-14_1.36.0-2+deb10u1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../65-libpsl5_0.20.2-2_amd64.deb ... Unpacking libpsl5:amd64 (0.20.2-2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../66-librtmp1_2.4+20151223.gitfa8646d.1-2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../67-libssh2-1_1.8.0-2.1_amd64.deb ... Unpacking libssh2-1:amd64 (1.8.0-2.1) ... Selecting previously unselected package libcurl3-gnutls:amd64. Preparing to unpack .../68-libcurl3-gnutls_7.64.0-4+deb10u2_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../69-libdeflate0_1.2-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.2-1) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../70-libgomp1_8.3.0-6_amd64.deb ... Unpacking libgomp1:amd64 (8.3.0-6) ... Selecting previously unselected package libhts2:amd64. Preparing to unpack .../71-libhts2_1.9-12~deb10u1_amd64.deb ... Unpacking libhts2:amd64 (1.9-12~deb10u1) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../72-libncurses6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package python-pysam. Preparing to unpack .../73-python-pysam_0.15.2+ds-2_amd64.deb ... Unpacking python-pysam (0.15.2+ds-2) ... Selecting previously unselected package python-ruffus. Preparing to unpack .../74-python-ruffus_2.8.1-4_all.deb ... Unpacking python-ruffus (2.8.1-4) ... Selecting previously unselected package samtools. Preparing to unpack .../75-samtools_1.9-4_amd64.deb ... Unpacking samtools (1.9-4) ... Selecting previously unselected package sga. Preparing to unpack .../76-sga_0.10.15-4_amd64.deb ... Unpacking sga (0.10.15-4) ... Setting up libexpat1:amd64 (2.2.6-2+deb10u4) ... Setting up libxdot4 (2.40.1-6+deb10u1) ... Setting up libgraphite2-3:amd64 (1.3.13-7) ... Setting up libpixman-1-0:amd64 (0.36.0-1) ... Setting up lsb-base (10.2019051400) ... Setting up libxau6:amd64 (1:1.0.8-1+b2) ... Setting up libkeyutils1:amd64 (1.6-6) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up mime-support (3.62) ... Setting up libdatrie1:amd64 (0.2.12-2) ... 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 liblab-gamut1 (2.40.1-6+deb10u1) ... 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 libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Setting up libdeflate0:amd64 (1.2-1) ... Setting up libgomp1:amd64 (8.3.0-6) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u7) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libkrb5support0:amd64 (1.17-3+deb10u4) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up libgts-0.7-5:amd64 (0.7.6+darcs121130-4) ... Setting up libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Setting up libx11-data (2:1.6.7-1+deb10u2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libpathplan4 (2.40.1-6+deb10u1) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libfribidi0:amd64 (1.0.5-3.1+deb10u2) ... Setting up libbamtools2.5.1:amd64 (2.5.1+dfsg-3) ... Setting up libpng16-16:amd64 (1.6.36-6) ... Setting up libwebp6:amd64 (0.6.1-2+deb10u1) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u4) ... Setting up libltdl7:amd64 (2.4.6-9) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up sensible-utils (0.0.12) ... Setting up libthai-data (0.1.28-2) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up libcdt5 (2.40.1-6+deb10u1) ... Setting up libkrb5-3:amd64 (1.17-3+deb10u4) ... Setting up libcgraph6 (2.40.1-6+deb10u1) ... Setting up libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up readline-common (7.0-5) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libice6:amd64 (2:1.0.9-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libxcb-render0:amd64 (1.13.1-2) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Setting up libxcb-shm0:amd64 (1.13.1-2) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Setting up libthai0:amd64 (0.1.28-2) ... Setting up libfreetype6:amd64 (2.9.1-3+deb10u3) ... Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Setting up ucf (3.0038+nmu1) ... Setting up libgvpr2 (2.40.1-6+deb10u1) ... Setting up libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Setting up libharfbuzz0b:amd64 (2.3.1-1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up fontconfig-config (2.13.1-2) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Setting up python2 (2.7.16-1) ... Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up libxt6:amd64 (1:1.1.5-1+b3) ... Setting up libfontconfig1:amd64 (2.13.1-2) ... Setting up python (2.7.16-1) ... Setting up fontconfig (2.13.1-2) ... Regenerating fonts cache... done. Setting up libxmu6:amd64 (2:1.1.2-2+b3) ... Setting up libhts2:amd64 (1.9-12~deb10u1) ... Setting up libpango-1.0-0:amd64 (1.42.4-8~deb10u1) ... Setting up libxaw7:amd64 (2:1.0.13-1+b2) ... Setting up libcairo2:amd64 (1.16.0-4+deb10u1) ... Setting up samtools (1.9-4) ... Setting up libgd3:amd64 (2.2.5-5.2) ... 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 python-pysam (0.15.2+ds-2) ... Setting up libgvc6 (2.40.1-6+deb10u1) ... Setting up graphviz (2.40.1-6+deb10u1) ... Setting up python-ruffus (2.8.1-4) ... Setting up sga (0.10.15-4) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', '-y', 'install', 'sga=0.10.15-4'] 0m17.9s INFO: Running scripts post_install 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_install_exceptions'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_install_exceptions'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_install_log_alternatives'] 0m18.0s DUMP: Removing 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' LOG-ALTERNATIVES: dpkg=python: piuparts=sga=0.10.15-4: /usr/bin/update-alternatives --auto /usr/bin/python LOG-ALTERNATIVES: dpkg=python: piuparts=sga=0.10.15-4: /usr/bin/update-alternatives --remove python /usr/bin/python1.5 LOG-ALTERNATIVES: dpkg=python: piuparts=sga=0.10.15-4: /usr/bin/update-alternatives --remove python /usr/bin/python2.1 LOG-ALTERNATIVES: dpkg=python: piuparts=sga=0.10.15-4: /usr/bin/update-alternatives --remove python /usr/bin/python2.2 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_install_log_alternatives'] 0m18.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m18.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m19.2s DEBUG: No broken symlinks as far as we can find. 0m19.3s INFO: /bin converted to /usr/bin by /usr merge 0m19.3s INFO: /lib converted to /usr/lib by /usr merge 0m19.3s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m19.3s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m19.3s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m19.3s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m19.3s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m19.3s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m19.3s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m19.3s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m19.3s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m19.3s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m19.3s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m19.3s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m19.3s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m19.3s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m19.3s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m19.3s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m19.3s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m19.3s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m19.3s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m19.3s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m19.3s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m19.3s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m19.3s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m19.3s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m19.3s INFO: /sbin converted to /usr/sbin by /usr merge 0m19.7s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', '-ac', '--ignore-obsolete'] 0m21.7s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', '-ac', '--ignore-obsolete'] 0m21.7s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m21.8s DUMP: 0.15.6 0m21.8s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m21.8s INFO: Running adequate version 0.15.6 now. 0m21.8s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'sga'] 0m22.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'sga'] 0m22.0s INFO: Running scripts pre_remove 0m22.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m22.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m22.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m22.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m22.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_exceptions'] 0m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/pre_remove_exceptions'] 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m25.6s 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 bsdutils bsdutils 1:2.33.1-0.1 install ok installed coreutils coreutils 8.30-3 install ok installed dash dash 0.5.10.2-5 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 e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 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-dejavu-core fonts-dejavu-core 2.37-1 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed graphviz graphviz 2.40.1-6+deb10u1 install ok installed grep grep 3.3-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 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 libbamtools2.5.1:amd64 libbamtools2.5.1 2.5.1+dfsg-3 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 libc6:amd64 libc6 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 libcdt5 libcdt5 2.40.1-6+deb10u1 install ok installed libcgraph6 libcgraph6 2.40.1-6+deb10u1 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 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 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 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 libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgd3:amd64 libgd3 2.2.5-5.2 install ok installed libglib2.0-0:amd64 libglib2.0-0 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-error0:amd64 libgpg-error0 1.35-1 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 libgts-0.7-5:amd64 libgts-0.7-5 0.7.6+darcs121130-4 install ok installed libgvc6 libgvc6 2.40.1-6+deb10u1 install ok installed libgvpr2 libgvpr2 2.40.1-6+deb10u1 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 2.3.1-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libhts2:amd64 libhts2 1.9-12~deb10u1 install ok installed libice6:amd64 libice6 2:1.0.9-2 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 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 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 liblab-gamut1 liblab-gamut1 2.40.1-6+deb10u1 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 libltdl7:amd64 libltdl7 2.4.6-9 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 libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libncurses6:amd64 libncurses6 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 libpathplan4 libpathplan4 2.40.1-6+deb10u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 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-stdlib:amd64 libpython-stdlib 2.7.16-1 install ok installed libpython2-stdlib:amd64 libpython2-stdlib 2.7.16-1 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 libreadline7:amd64 libreadline7 7.0-5 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-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 libsm6:amd64 libsm6 2:1.2.3-1 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: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 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 libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 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 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 libxaw7:amd64 libxaw7 2:1.0.13-1+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 libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxdot4 libxdot4 2.40.1-6+deb10u1 install ok installed libxext6:amd64 libxext6 2:1.3.3-1+b2 install ok installed libxmu6:amd64 libxmu6 2:1.1.2-2+b3 install ok installed libxpm4:amd64 libxpm4 1:3.5.12-1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1 install ok installed libxt6:amd64 libxt6 1:1.1.5-1+b3 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed login login 1:4.5-1.1 install ok installed lsb-base lsb-base 10.2019051400 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 ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed python python 2.7.16-1 install ok installed python-minimal python-minimal 2.7.16-1 install ok installed python-pysam python-pysam 0.15.2+ds-2 install ok installed python-ruffus python-ruffus 2.8.1-4 install ok installed python2 python2 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-minimal python2.7-minimal 2.7.16-2+deb10u1 install ok installed readline-common readline-common 7.0-5 install ok installed samtools samtools 1.9-4 install ok installed sed sed 4.7-1 install ok installed sensible-utils sensible-utils 0.0.12 install ok installed sga sga 0.10.15-4 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 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 zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 0m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', 'remove', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'graphviz', 'libbamtools2.5.1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdt5', 'libcgraph6', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgd3:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgts-0.7-5:amd64', 'libgvc6', 'libgvpr2', 'libharfbuzz0b:amd64', 'libhts2:amd64', 'libice6:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblab-gamut1', 'libldap-2.4-2:amd64', 'libldap-common', 'libltdl7:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpathplan4', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxdot4', 'libxext6:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxt6:amd64', 'lsb-base', 'mime-support', 'python', 'python-minimal', 'python-pysam', 'python-ruffus', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'readline-common', 'samtools', 'sensible-utils', 'ucf', 'x11-common', 'sga'] 0m26.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: fontconfig fontconfig-config fonts-dejavu-core graphviz libbamtools2.5.1 libbsd0 libcairo2 libcdt5 libcgraph6 libcurl3-gnutls libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgd3 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhts2 libice6 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblab-gamut1 libldap-2.4-2 libldap-common libltdl7 libncurses6 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpixman-1-0 libpng16-16 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsqlite3-0 libssh2-1 libssl1.1 libthai-data libthai0 libtiff5 libwebp6 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxdot4 libxext6 libxmu6 libxpm4 libxrender1 libxt6 lsb-base mime-support python python-minimal python-pysam python-ruffus python2 python2-minimal python2.7 python2.7-minimal readline-common samtools sensible-utils sga ucf x11-common 0 upgraded, 0 newly installed, 92 to remove and 0 not upgraded. After this operation, 74.6 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 ... 8690 files and directories currently installed.) Removing sga (0.10.15-4) ... Removing python-ruffus (2.8.1-4) ... Removing graphviz (2.40.1-6+deb10u1) ... Removing libgvc6 (2.40.1-6+deb10u1) ... Removing libpangocairo-1.0-0:amd64 (1.42.4-8~deb10u1) ... Removing libpangoft2-1.0-0:amd64 (1.42.4-8~deb10u1) ... Removing libpango-1.0-0:amd64 (1.42.4-8~deb10u1) ... Removing fontconfig (2.13.1-2) ... Removing libgd3:amd64 (2.2.5-5.2) ... Removing libcairo2:amd64 (1.16.0-4+deb10u1) ... Removing libfontconfig1:amd64 (2.13.1-2) ... Removing fontconfig-config (2.13.1-2) ... Removing fonts-dejavu-core (2.37-1) ... Removing libbamtools2.5.1:amd64 (2.5.1+dfsg-3) ... Removing libxaw7:amd64 (2:1.0.13-1+b2) ... Removing libxmu6:amd64 (2:1.1.2-2+b3) ... Removing libxt6:amd64 (1:1.1.5-1+b3) ... Removing libxrender1:amd64 (1:0.9.10-1) ... Removing libxcb-shm0:amd64 (1.13.1-2) ... Removing libsm6:amd64 (2:1.2.3-1) ... Removing libice6:amd64 (2:1.0.9-2) ... Removing libgvpr2 (2.40.1-6+deb10u1) ... Removing libcgraph6 (2.40.1-6+deb10u1) ... Removing libcdt5 (2.40.1-6+deb10u1) ... Removing samtools (1.9-4) ... 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 libthai0:amd64 (0.1.28-2) ... Removing libdatrie1:amd64 (0.2.12-2) ... Removing libdeflate0:amd64 (1.2-1) ... Removing python (2.7.16-1) ... Removing python2 (2.7.16-1) ... Removing python2.7 (2.7.16-2+deb10u1) ... Removing libpython-stdlib:amd64 (2.7.16-1) ... Removing libharfbuzz0b:amd64 (2.3.1-1) ... Removing libfreetype6:amd64 (2.9.1-3+deb10u3) ... Removing libfribidi0:amd64 (1.0.5-3.1+deb10u2) ... Removing libgts-0.7-5:amd64 (0.7.6+darcs121130-4) ... Removing libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... 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 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 liblab-gamut1 (2.40.1-6+deb10u1) ... Removing libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Removing libldap-common (2.4.47+dfsg-3+deb10u7) ... Removing libltdl7:amd64 (2.4.6-9) ... Removing libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Removing libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Removing libpathplan4 (2.40.1-6+deb10u1) ... Removing libpixman-1-0:amd64 (0.36.0-1) ... Removing libpng16-16:amd64 (1.6.36-6) ... Removing libpsl5:amd64 (0.20.2-2) ... 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 librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Removing libsasl2-2: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 libthai-data (0.1.28-2) ... Removing libwebp6:amd64 (0.6.1-2+deb10u1) ... Removing libxcb-render0:amd64 (1.13.1-2) ... Removing libxdot4 (2.40.1-6+deb10u1) ... Removing libxext6:amd64 (2:1.3.3-1+b2) ... Removing libxpm4:amd64 (1:3.5.12-1) ... 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 ucf (3.0038+nmu1) ... Removing sensible-utils (0.0.12) ... 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 libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Removing libexpat1:amd64 (2.2.6-2+deb10u4) ... 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 libssl1.1:amd64 (1.1.1n-0+deb10u3) ... Removing libx11-data (2:1.6.7-1+deb10u2) ... Removing libxau6:amd64 (1:1.0.8-1+b2) ... Removing mime-support (3.62) ... Removing readline-common (7.0-5) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 0m26.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', 'remove', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'graphviz', 'libbamtools2.5.1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdt5', 'libcgraph6', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgd3:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgts-0.7-5:amd64', 'libgvc6', 'libgvpr2', 'libharfbuzz0b:amd64', 'libhts2:amd64', 'libice6:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblab-gamut1', 'libldap-2.4-2:amd64', 'libldap-common', 'libltdl7:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpathplan4', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxdot4', 'libxext6:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxt6:amd64', 'lsb-base', 'mime-support', 'python', 'python-minimal', 'python-pysam', 'python-ruffus', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'readline-common', 'samtools', 'sensible-utils', 'ucf', 'x11-common', 'sga'] 0m26.8s INFO: Running scripts post_remove 0m26.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_remove_exceptions'] 0m26.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_remove_exceptions'] 0m26.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg', '--purge', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'graphviz', 'libbamtools2.5.1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdt5', 'libcgraph6', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgd3:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgts-0.7-5:amd64', 'libgvc6', 'libgvpr2', 'libharfbuzz0b:amd64', 'libhts2:amd64', 'libice6:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblab-gamut1', 'libldap-2.4-2:amd64', 'libldap-common', 'libltdl7:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpathplan4', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxdot4', 'libxext6:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxt6:amd64', 'lsb-base', 'mime-support', 'python', 'python-minimal', 'python-pysam', 'python-ruffus', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'readline-common', 'samtools', 'sensible-utils', 'ucf', 'x11-common'] 0m27.4s DUMP: (Reading database ... 6509 files and directories currently installed.) Purging configuration files for fontconfig (2.13.1-2) ... Purging configuration files for fontconfig-config (2.13.1-2) ... Purging configuration files for fonts-dejavu-core (2.37-1) ... dpkg: warning: while removing fonts-dejavu-core, directory '/usr/share/fonts/truetype/dejavu' not empty so not removed Purging configuration files for graphviz (2.40.1-6+deb10u1) ... dpkg: warning: ignoring request to remove libbamtools2.5.1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcdt5 which isn't installed dpkg: warning: ignoring request to remove libcgraph6 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 libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 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 libgd3 which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... 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) ... dpkg: warning: ignoring request to remove libgts-0.7-5 which isn't installed Purging configuration files for libgvc6 (2.40.1-6+deb10u1) ... dpkg: warning: ignoring request to remove libgvpr2 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts2 which isn't installed dpkg: warning: ignoring request to remove libice6 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 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 liblab-gamut1 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 libltdl7 which isn't installed dpkg: warning: ignoring request to remove libncurses6 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 libpathplan4 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-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython2-stdlib 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 libreadline7 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 dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsm6 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 Purging configuration files for libssl1.1:amd64 (1.1.1n-0+deb10u3) ... 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 libwebp6 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 libxaw7 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 libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxdot4 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxmu6 which isn't installed dpkg: warning: ignoring request to remove libxpm4 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxt6 which isn't installed dpkg: warning: ignoring request to remove lsb-base which isn't installed Purging configuration files for mime-support (3.62) ... Purging configuration files for python (2.7.16-1) ... dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-pysam which isn't installed dpkg: warning: ignoring request to remove python-ruffus which isn't installed dpkg: warning: ignoring request to remove python2 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 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 samtools which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for ucf (3.0038+nmu1) ... Purging configuration files for x11-common (1:7.7+19) ... 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg', '--purge', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'graphviz', 'libbamtools2.5.1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdt5', 'libcgraph6', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgd3:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgts-0.7-5:amd64', 'libgvc6', 'libgvpr2', 'libharfbuzz0b:amd64', 'libhts2:amd64', 'libice6:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblab-gamut1', 'libldap-2.4-2:amd64', 'libldap-common', 'libltdl7:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpathplan4', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxdot4', 'libxext6:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxt6:amd64', 'lsb-base', 'mime-support', 'python', 'python-minimal', 'python-pysam', 'python-ruffus', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'readline-common', 'samtools', 'sensible-utils', 'ucf', 'x11-common'] 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg', '--purge', 'sga'] 0m27.4s DUMP: dpkg: warning: ignoring request to remove sga which isn't installed 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg', '--purge', 'sga'] 0m27.4s INFO: Running scripts post_purge 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_purge_exceptions'] 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_purge_exceptions'] 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg', '--purge', '--pending'] 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg', '--purge', '--pending'] 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg', '--remove', '--pending'] 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg', '--remove', '--pending'] 0m27.4s INFO: Running scripts post_test 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_test_exceptions'] 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'tmp/scripts/post_test_exceptions'] 0m27.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m27.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m28.7s DEBUG: No broken symlinks as far as we can find. 0m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg-divert', '--list'] 0m28.7s 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 0m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'dpkg-divert', '--list'] 0m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', 'clean'] 0m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdtm15zls', 'apt-get', 'clean'] 0m28.7s DEBUG: Recording chroot state 0m29.3s INFO: Warning: Package purging left files on system: /usr/local/share/fonts/ not owned /usr/local/share/fonts/.uuid not owned /usr/share/fonts/ owned by: fonts-dejavu-core /usr/share/fonts/.uuid not owned /usr/share/fonts/truetype/ owned by: fonts-dejavu-core /usr/share/fonts/truetype/.uuid not owned /usr/share/fonts/truetype/dejavu/ owned by: fonts-dejavu-core /usr/share/fonts/truetype/dejavu/.uuid not owned 0m29.3s INFO: PASS: Installation and purging test. 0m29.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/shm'] 0m29.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/shm'] 0m29.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/console'] 0m29.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/console'] 0m29.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/ptmx'] 0m29.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/ptmx'] 0m29.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/pts'] 0m29.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/dev/pts'] 0m29.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/proc'] 0m29.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdtm15zls/proc'] 0m29.8s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m29.8s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdtm15zls'] 0m29.8s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpdtm15zls 0m29.8s INFO: PASS: All tests. 0m29.8s INFO: piuparts run ends. ret=0 End: 2024-01-06 20:23:34 GMT